DiffPack: A Torsional Diffusion Model for Autoregressive Protein Side-Chain Packing

1 June 2023

Jian Tang

Papers citing "DiffPack: A Torsional Diffusion Model for Autoregressive Protein Side-Chain Packing"

20 / 20 papers shown

Title
AbFlowNet: Optimizing Antibody-Antigen Binding Energy via Diffusion-GFlowNet Fusion Abrar Rahman Abir Haz Sameen Shahgir Md Rownok Zahan Ratul Md Toki Tahmid Greg Ver Steeg Yue Dong 7 0 0 18 May 2025
An All-Atom Generative Model for Designing Protein Complexes Ruizhe Chen Dongyu Xue Xiangxin Zhou Zaixiang Zheng Xiangxiang Zeng Quanquan Gu 26 0 0 17 Apr 2025
PolyConf: Unlocking Polymer Conformation Generation through Hierarchical Generative Models Fanmeng Wang Wentao Guo Qi Ou Hongshuai Wang Haitao Lin Hongteng Xu Zhifeng Gao AI4CE 43 1 0 11 Apr 2025
Integrating Protein Dynamics into Structure-Based Drug Design via Full-Atom Stochastic Flows Xiangxin Zhou Yi Xiao Haowei Lin Xinheng He Jiaqi Guan Yang Wang Qiang Liu F. I. S. Kevin Zhou Liang Wang Jianzhu Ma AI4CE 60 0 0 06 Mar 2025
Non-Linear Flow Matching for Full-Atom Peptide Design Dengdeng Huang Shikui Tu 43 0 0 21 Feb 2025
Generative Modeling on Lie Groups via Euclidean Generalized Score Matching Marco Bertolini Tuan Le Djork-Arné Clevert DiffM 90 0 0 04 Feb 2025
DiffGAD: A Diffusion-based Unsupervised Graph Anomaly Detector Jinghan Li Yuan Gao Jinda Lu Junfeng Fang Congcong Wen Hui Lin Xiang Wang 58 1 0 09 Oct 2024
EnzymeFlow: Generating Reaction-specific Enzyme Catalytic Pockets through Flow Matching and Co-Evolutionary Dynamics Chenqing Hua Yong Liu Dinghuai Zhang Odin Zhang Sitao Luan Kevin K. Yang Guy Wolf Doina Precup Shuangjia Zheng 48 6 0 01 Oct 2024
Full-Atom Peptide Design based on Multi-modal Flow Matching Jiahan Li Chaoran Cheng Zuofan Wu Ruihan Guo Shitong Luo Zhizhou Ren Jian-wei Peng Jianzhu Ma 53 15 0 02 Jun 2024
Sifting through the Noise: A Survey of Diffusion Probabilistic Models and Their Applications to Biomolecules Trevor Norton Debswapna Bhattacharya MedIm DiffM 55 2 0 31 May 2024
Multi-level Interaction Modeling for Protein Mutational Effect Prediction Yuanle Mo Xin Hong Bowen Gao Yinjun Jia Yanyan Lan AI4CE 29 2 0 28 May 2024
De novo antibody design with SE(3) diffusion Daniel Cutting Frédéric A. Dreyer David Errington Constantin Schneider Charlotte M. Deane DiffM 43 4 0 13 May 2024
SubGDiff: A Subgraph Diffusion Model to Improve Molecular Representation Learning Jiying Zhang Zijing Liu Yu Wang Yu Li DiffM 53 1 0 09 May 2024
PPFlow: Target-aware Peptide Design with Torsional Flow Matching Haitao Lin Odin Zhang Huifeng Zhao Dejun Jiang Lirong Wu Zicheng Liu Yufei Huang Stan Z. Li 62 12 0 05 Mar 2024
Re-Dock: Towards Flexible and Realistic Molecular Docking with Diffusion Bridge Yufei Huang Odin Zhang Lirong Wu Cheng Tan Haitao Lin Zhangyang Gao Siyuan Li Stan. Z. Li DiffM 34 6 0 18 Feb 2024
H-Packer: Holographic Rotationally Equivariant Convolutional Neural Network for Protein Side-Chain Packing Gian Marco Visani William Galvin Michael N. Pun Armita Nourmohammad 30 6 0 15 Nov 2023
On the Design Fundamentals of Diffusion Models: A Survey Ziyi Chang George Alex Koulieris Hubert P. H. Shum DiffM 29 54 0 07 Jun 2023
DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking Gabriele Corso Hannes Stärk Bowen Jing Regina Barzilay Tommi Jaakkola DiffM 142 412 0 04 Oct 2022
Contrastive Representation Learning for 3D Protein Structures Pedro Hermosilla Timo Ropinski 3DV 51 51 0 31 May 2022
Protein Structure and Sequence Generation with Equivariant Denoising Diffusion Probabilistic Models N. Anand Tudor Achim DiffM 196 173 0 26 May 2022