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Protein structure generation via folding diffusion

30 September 2022

Papers citing "Protein structure generation via folding diffusion"

26 / 26 papers shown

Title
Generative Modeling of Full-Atom Protein Conformations using Latent Diffusion on Graph Embeddings Aditya Sengar Ali Hariri Daniel Probst Patrick Barth P. Vandergheynst DiffM AI4CE 5 0 0 20 Jun 2025
FunDiff: Diffusion Models over Function Spaces for Physics-Informed Generative Modeling Sifan Wang Zehao Dou Tong-Rui Liu Lu Lu DiffM 33 0 0 09 Jun 2025
Potential Score Matching: Debiasing Molecular Structure Sampling with Potential Energy Guidance Liya Guo Zun Wang Chang-Shu Liu Junlong Li Pipi Hu Yi Zhu DiffM 73 0 0 18 Mar 2025
Learning the Language of Protein Structure Benoit Gaujac Jérémie Donà Liviu Copoiu Timothy Atkinson Thomas Pierrot Thomas D. Barrett 99 12 0 08 Jan 2025
ProteinWeaver: A Divide-and-Assembly Approach for Protein Backbone Design Yiming Ma Fei Ye Yi Zhou Zaixiang Zheng Dongyu Xue Quanquan Gu 166 0 0 08 Nov 2024
Diffusion Twigs with Loop Guidance for Conditional Graph Generation Giangiacomo Mercatali Yogesh Verma André Freitas Vikas Garg 87 4 0 31 Oct 2024
DiffGAD: A Diffusion-based Unsupervised Graph Anomaly Detector Jinghan Li Yuan Gao Jinda Lu Sihang Li Congcong Wen Hui Lin Xiang Wang 131 3 0 09 Oct 2024
What Ails Generative Structure-based Drug Design: Expressivity is Too Little or Too Much? Rafał Karczewski Samuel Kaski Markus Heinonen Vikas Garg 105 0 0 12 Aug 2024
Solving Inverse Problems in Protein Space Using Diffusion-Based Priors Axel Levy E. R. Chan Sara Fridovich-Keil Frédéric Poitevin Ellen D. Zhong Gordon Wetzstein DiffM 162 8 0 06 Jun 2024
Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation Guillaume Huguet James Vuckovic Kilian Fatras Eric Thibodeau-Laufer Pablo Lemos ... Jarrid Rector-Brooks Tara Akhound-Sadegh Michael M. Bronstein Alexander Tong A. Bose 98 32 0 30 May 2024
TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation Zongying Lin Hao Li Liuzhenghao Lv Lin Bin Junwu Zhang Calvin Yu-Chian Chwn Li Yuan Tian Yonghong 72 3 0 27 Feb 2024
Lecture Notes in Probabilistic Diffusion Models Inga Strümke H. Langseth DiffM 21 0 0 16 Dec 2023
Improving Protein-peptide Interface Predictions in the Low Data Regime Justin S. Diamond M. Lill ViT 47 0 0 31 May 2023
Augmented Message Passing Stein Variational Gradient Descent Jiankui Zhou Yue Qiu 63 0 0 18 May 2023
Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer Cheng Tan Zhangyang Gao Lirong Wu Jun Xia Jiangbin Zheng Xihong Yang Yue Liu Bozhen Hu Stan Z. Li 116 15 0 21 Apr 2023
Internal-Coordinate Density Modelling of Protein Structure: Covariance Matters Marloes Arts J. Frellsen Wouter Boomsma 66 1 0 27 Feb 2023
MiDi: Mixed Graph and 3D Denoising Diffusion for Molecule Generation Clément Vignac Nagham Osman Laura Toni P. Frossard DiffM 105 63 0 17 Feb 2023
Score-based Diffusion Models in Function Space Jae Hyun Lim Nikola B. Kovachki Ricardo Baptista Christopher Beckham Kamyar Azizzadenesheli ... Karsten Kreis Jan Kautz Christopher Pal Arash Vahdat Anima Anandkumar DiffM 191 50 0 14 Feb 2023
Diffusion Models in Bioinformatics: A New Wave of Deep Learning Revolution in Action Zhiye Guo Jian Liu Yanli Wang Mengrui Chen Duolin Wang Dong Xu Jianlin Cheng MedIm AI4CE DiffM 140 23 0 13 Feb 2023
A Text-guided Protein Design Framework Shengchao Liu Yanjing Li Zhuoxinran Li A. Gitter Yutao Zhu ... Arvind Ramanathan Chaowei Xiao Jian Tang Hongyu Guo Anima Anandkumar 130 70 0 09 Feb 2023
Generative Diffusion Models on Graphs: Methods and Applications Junfeng Fang Wenqi Fan Yunqing Liu Jiatong Li Hang Li Hui Liu Jiliang Tang Qing Li MedIm DiffM 123 66 0 06 Feb 2023
Pre-Training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction Zuobai Zhang Minghao Xu A. Lozano Vijil Chenthamarakshan Payel Das Jian Tang DiffM 81 21 0 28 Jan 2023
Protein Language Models and Structure Prediction: Connection and Progression Bozhen Hu Jun Xia Jiangbin Zheng Cheng Tan Yufei Huang Yongjie Xu Stan Z. Li 63 41 0 30 Nov 2022
Fast Graph Generation via Spectral Diffusion Tianze Luo Zhanfeng Mo Sinno Jialin Pan DiffM 91 27 0 16 Nov 2022
eDiff-I: Text-to-Image Diffusion Models with an Ensemble of Expert Denoisers Yogesh Balaji Seungjun Nah Xun Huang Arash Vahdat Jiaming Song ... Timo Aila S. Laine Bryan Catanzaro Tero Karras Xuan Li VLM MoE 209 832 0 02 Nov 2022
SSD-LM: Semi-autoregressive Simplex-based Diffusion Language Model for Text Generation and Modular Control Xiaochuang Han Sachin Kumar Yulia Tsvetkov 163 91 0 31 Oct 2022