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Generating molecular structures with desired properties is a critical task with broad applications in drug discovery and materials design. We propose 3M-Diffusion, a novel multi-modal molecular graph generation method, to generate diverse,…

Machine Learning · Computer Science 2024-10-04 Huaisheng Zhu , Teng Xiao , Vasant G Honavar

Generating as diverse molecules as possible with desired properties is crucial for drug discovery research, which invokes many approaches based on deep generative models today. Despite recent advancements in these models, particularly in…

Machine Learning · Computer Science 2024-07-17 Changhun Lee , Gyumin Lee

Deep learning has proven to yield fast and accurate predictions of quantum-chemical properties to accelerate the discovery of novel molecules and materials. As an exhaustive exploration of the vast chemical space is still infeasible, we…

Machine Learning · Statistics 2020-01-10 Niklas W. A. Gebauer , Michael Gastegger , Kristof T. Schütt

Diffusion Transformers have recently shown remarkable effectiveness in generating high-quality 3D point clouds. However, training voxel-based diffusion models for high-resolution 3D voxels remains prohibitively expensive due to the cubic…

Computer Vision and Pattern Recognition · Computer Science 2023-12-13 Shentong Mo , Enze Xie , Yue Wu , Junsong Chen , Matthias Nießner , Zhenguo Li

The design of target-specific molecules such as small molecules, peptides, and antibodies is vital for biological research and drug discovery. Existing generative methods are restricted to single-domain molecules, failing to address…

Machine Learning · Computer Science 2025-05-27 Xiangzhe Kong , Zishen Zhang , Ziting Zhang , Rui Jiao , Jianzhu Ma , Wenbing Huang , Kai Liu , Yang Liu

Designing de novo 3D molecules with desirable properties remains a fundamental challenge in drug discovery and molecular engineering. While diffusion models have demonstrated remarkable capabilities in generating high-quality 3D molecular…

Machine Learning · Computer Science 2026-01-15 Lianghong Chen , Dongkyu Eugene Kim , Mike Domaratzki , Pingzhao Hu

Diffusion models have recently gained prominence as powerful deep generative models, demonstrating unmatched performance across various domains. However, their potential in multi-sensor fusion remains largely unexplored. In this work, we…

Computer Vision and Pattern Recognition · Computer Science 2024-09-25 Duy-Tho Le , Hengcan Shi , Jianfei Cai , Hamid Rezatofighi

Diffusion models have emerged as a powerful class of generative models for molecular design, capable of capturing complex structural distributions and achieving high fidelity in 3D molecule generation. However, their widespread use remains…

Machine Learning · Computer Science 2026-01-15 Adrita Das , Peiran Jiang , Dantong Zhu , Barnabas Poczos , Jose Lugo-Martinez

In recent years, 3D vision has become a crucial field within computer vision, powering a wide range of applications such as autonomous driving, robotics, augmented reality, and medical imaging. This field relies on accurate perception,…

Computer Vision and Pattern Recognition · Computer Science 2025-04-02 Zhen Wang , Dongyuan Li , Yaozu Wu , Tianyu He , Jiang Bian , Renhe Jiang

Fully-supervised category-level pose estimation aims to determine the 6-DoF poses of unseen instances from known categories, requiring expensive mannual labeling costs. Recently, various self-supervised category-level pose estimation…

Computer Vision and Pattern Recognition · Computer Science 2024-03-20 Jingtao Sun , Yaonan Wang , Mingtao Feng , Chao Ding , Mike Zheng Shou , Ajmal Saeed Mian

De novo 3D molecule generation is a pivotal task in drug discovery. However, many recent geometric generative models struggle to produce high-quality 3D structures, even if they maintain 2D validity and topological stability. To tackle this…

Machine Learning · Computer Science 2025-05-27 Danny Reidenbach , Filipp Nikitin , Olexandr Isayev , Saee Paliwal

Recent advancements in Diffusion Transformer (DiT) models have significantly improved 3D point cloud generation. However, existing methods primarily focus on local feature extraction while overlooking global topological information, such as…

Computer Vision and Pattern Recognition · Computer Science 2025-05-15 Zechao Guan , Feng Yan , Shuai Du , Lin Ma , Qingshan Liu

Computational methods that operate on three-dimensional molecular structure have the potential to solve important questions in biology and chemistry. In particular, deep neural networks have gained significant attention, but their…

Denoising diffusion probabilistic models (DDPMs) have pioneered new state-of-the-art results in disciplines such as computer vision and computational biology for diverse tasks ranging from text-guided image generation to structure-guided…

Machine Learning · Computer Science 2024-05-28 Alex Morehead , Jianlin Cheng

The recently developed discrete diffusion models perform extraordinarily well in the text-to-image task, showing significant promise for handling the multi-modality signals. In this work, we harness these traits and present a unified…

Computer Vision and Pattern Recognition · Computer Science 2022-11-29 Minghui Hu , Chuanxia Zheng , Heliang Zheng , Tat-Jen Cham , Chaoyue Wang , Zuopeng Yang , Dacheng Tao , Ponnuthurai N. Suganthan

Many processes in biology and drug discovery involve various 3D interactions between molecules, such as protein and protein, protein and small molecule, etc. Given that different molecules are usually represented in different granularity,…

Machine Learning · Computer Science 2024-05-31 Xiangzhe Kong , Wenbing Huang , Yang Liu

Diffusion models currently achieve state-of-the-art performance for both conditional and unconditional image generation. However, so far, image diffusion models do not support tasks required for 3D understanding, such as view-consistent 3D…

Computer Vision and Pattern Recognition · Computer Science 2024-02-22 Titas Anciukevičius , Zexiang Xu , Matthew Fisher , Paul Henderson , Hakan Bilen , Niloy J. Mitra , Paul Guerrero

Mass spectrometry plays a fundamental role in elucidating the structures of unknown molecules and subsequent scientific discoveries. One formulation of the structure elucidation task is the conditional de novo generation of molecular…

Machine Learning · Computer Science 2025-05-29 Montgomery Bohde , Mrunali Manjrekar , Runzhong Wang , Shuiwang Ji , Connor W. Coley

Drug discovery is a complex, resource-intensive process requiring significant time and cost to bring new medicines to patients. Many generative models aim to accelerate drug discovery, but few produce synthetically accessible molecules.…

Machine Learning · Computer Science 2025-01-30 Zygimantas Jocys , Zhanxing Zhu , Henriette M. G. Willems , Katayoun Farrahi

Diffusion models have recently become the de-facto approach for generative modeling in the 2D domain. However, extending diffusion models to 3D is challenging due to the difficulties in acquiring 3D ground truth data for training. On the…

Computer Vision and Pattern Recognition · Computer Science 2023-10-27 Jiatao Gu , Qingzhe Gao , Shuangfei Zhai , Baoquan Chen , Lingjie Liu , Josh Susskind