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Molecular property prediction, crucial for early drug candidate screening and optimization, has seen advancements with deep learning-based methods. While deep learning-based methods have advanced considerably, they often fall short in fully…

Biomolecules · Quantitative Biology 2024-07-01 Taojie Kuang , Yiming Ren , Zhixiang Ren

Recently many efforts have been devoted to applying graph neural networks (GNNs) to molecular property prediction which is a fundamental task for computational drug and material discovery. One of major obstacles to hinder the successful…

Machine Learning · Computer Science 2021-09-27 Shuangli Li , Jingbo Zhou , Tong Xu , Dejing Dou , Hui Xiong

Effective molecular representation learning is of great importance to facilitate molecular property prediction, which is a fundamental task for the drug and material industry. Recent advances in graph neural networks (GNNs) have shown great…

Machine Learning · Computer Science 2022-05-17 Xiaomin Fang , Lihang Liu , Jieqiong Lei , Donglong He , Shanzhuo Zhang , Jingbo Zhou , Fan Wang , Hua Wu , Haifeng Wang

Learning on 3D structures of large biomolecules is emerging as a distinct area in machine learning, but there has yet to emerge a unifying network architecture that simultaneously leverages the graph-structured and geometric aspects of the…

Biomolecules · Quantitative Biology 2021-05-18 Bowen Jing , Stephan Eismann , Patricia Suriana , Raphael J. L. Townshend , Ron Dror

In the wake of the growing popularity of machine learning in particle physics, this work finds a new application of geometric deep learning on Feynman diagrams to make accurate and fast matrix element predictions with the potential to be…

Computational Physics · Physics 2022-11-29 Harrison Mitchell , Alexander Norcliffe , Pietro Liò

We introduce DeepDFT, a deep learning model for predicting the electronic charge density around atoms, the fundamental variable in electronic structure simulations from which all ground state properties can be calculated. The model is…

Computational Physics · Physics 2020-11-09 Peter Bjørn Jørgensen , Arghya Bhowmik

Representing and reasoning about 3D structures of macromolecules is emerging as a distinct challenge in machine learning. Here, we extend recent work on geometric vector perceptrons and apply equivariant graph neural networks to a wide…

Machine Learning · Computer Science 2021-07-14 Bowen Jing , Stephan Eismann , Pratham N. Soni , Ron O. Dror

According to density functional theory, any chemical property can be inferred from the electron density, making it the most informative attribute of an atomic structure. In this work, we demonstrate the use of established physical methods…

Materials Science · Physics 2023-09-12 Ethan M. Sunshine , Muhammed Shuaibi , Zachary W. Ulissi , John R. Kitchin

Materials discovery, especially for applications that require extreme operating conditions, requires extensive testing that naturally limits the ability to inquire the wealth of possible compositions. Machine Learning (ML) has nowadays a…

Materials Science · Physics 2023-06-21 Dario Massa , Daniel Cieśliński , Amirhossein Naghdi , Stefanos Papanikolaou

In recent years, with the rapid development of computer information technology, the development of artificial intelligence has been accelerating. The traditional geometry recognition technology is relatively backward and the recognition…

Computer Vision and Pattern Recognition · Computer Science 2024-04-26 Ruiyang Wang , Haonan Wang , Junfeng Sun , Mingjia Zhao , Meng Liu

Faithfully reconstructing 3D geometry and generating novel views of scenes are critical tasks in 3D computer vision. Despite the widespread use of image augmentations across computer vision applications, their potential remains…

Computer Vision and Pattern Recognition · Computer Science 2023-06-16 Juan C. Pérez , Sara Rojas , Jesus Zarzar , Bernard Ghanem

Recent advances in graph neural networks (GNNs) have enabled more comprehensive modeling of molecules and molecular systems, thereby enhancing the precision of molecular property prediction and molecular simulations. Nonetheless, as the…

Machine Learning · Computer Science 2023-10-31 Filip Ekström Kelvinius , Dimitar Georgiev , Artur Petrov Toshev , Johannes Gasteiger

Large-scale density functional theory (DFT) calculations provide a powerful tool to investigate the atomic and electronic structure of materials with complex structures. This article reviews a large-scale DFT calculation method, the…

Materials Science · Physics 2022-08-31 Ayako Nakata , David R. Bowler , Tsuyoshi Miyazaki

Graph neural networks (GNNs), as topology/structure-aware models within deep learning, have emerged as powerful tools for AI-aided drug discovery (AIDD). By directly operating on molecular graphs, GNNs offer an intuitive and expressive…

Biomolecules · Quantitative Biology 2025-06-10 Odin Zhang , Haitao Lin , Xujun Zhang , Xiaorui Wang , Zhenxing Wu , Qing Ye , Weibo Zhao , Jike Wang , Kejun Ying , Yu Kang , Chang-yu Hsieh , Tingjun Hou

Deep-learning density functional theory (DFT) shows great promise to significantly accelerate material discovery and potentially revolutionize materials research. However, current research in this field primarily relies on data-driven…

Computational Physics · Physics 2024-08-14 Yang Li , Zechen Tang , Zezhou Chen , Minghui Sun , Boheng Zhao , He Li , Honggeng Tao , Zilong Yuan , Wenhui Duan , Yong Xu

The calculation of electron density distribution using density functional theory (DFT) in materials and molecules is central to the study of their quantum and macro-scale properties, yet accurate and efficient calculation remains a…

Computational Physics · Physics 2024-05-15 Teddy Koker , Keegan Quigley , Eric Taw , Kevin Tibbetts , Lin Li

Learning methods for relative camera pose estimation have been developed largely in isolation from classical geometric approaches. The question of how to integrate predictions from deep neural networks (DNNs) and solutions from geometric…

Computer Vision and Pattern Recognition · Computer Science 2021-04-19 Bingbing Zhuang , Manmohan Chandraker

We present a novel learning-based approach for computing correspondences between non-rigid 3D shapes. Unlike previous methods that either require extensive training data or operate on handcrafted input descriptors and thus generalize poorly…

Machine Learning · Statistics 2020-04-01 Nicolas Donati , Abhishek Sharma , Maks Ovsjanikov

3D geometry is a very informative cue when interacting with and navigating an environment. This writing proposes a new approach to 3D reconstruction and scene understanding, which implicitly learns 3D geometry from depth maps pairing a deep…

Computer Vision and Pattern Recognition · Computer Science 2018-08-22 Dario Rethage , Federico Tombari , Felix Achilles , Nassir Navab

3D generative modeling is accelerating as the technology allowing the capture of geometric data is developing. However, the acquired data is often inconsistent, resulting in unregistered meshes or point clouds. Many generative learning…

Computer Vision and Pattern Recognition · Computer Science 2023-06-29 Thomas Besnier , Sylvain Arguillère , Emery Pierson , Mohamed Daoudi