Flexibility-Conditioned Protein Structure Design with Flow Matching
Fuente:
arXiv
Saved in:
| Main Authors: | Viliuga, Vsevolod, Seute, Leif, Wolf, Nicolas, Wagner, Simon, Elofsson, Arne, Stühmer, Jan, Gräter, Frauke |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Similar Items
Learning conformational ensembles of proteins based on backbone geometry
by: Wolf, Nicolas, et al.
Published: (2025)
by: Wolf, Nicolas, et al.
Published: (2025)
Generating Highly Designable Proteins with Geometric Algebra Flow Matching
by: Wagner, Simon, et al.
Published: (2024)
by: Wagner, Simon, et al.
Published: (2024)
Grappa -- A Machine Learned Molecular Mechanics Force Field
by: Seute, Leif, et al.
Published: (2024)
by: Seute, Leif, et al.
Published: (2024)
Learning Potential Energy Surfaces of Hydrogen Atom Transfer Reactions in Peptides
by: Neubert, Marlen, et al.
Published: (2025)
by: Neubert, Marlen, et al.
Published: (2025)
Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation
by: Huguet, Guillaume, et al.
Published: (2024)
by: Huguet, Guillaume, et al.
Published: (2024)
EquiFlow: Equivariant Conditional Flow Matching with Optimal Transport for 3D Molecular Conformation Prediction
by: Tian, Qingwen, et al.
Published: (2024)
by: Tian, Qingwen, et al.
Published: (2024)
Flexible MOF Generation with Torsion-Aware Flow Matching
by: Kim, Nayoung, et al.
Published: (2025)
by: Kim, Nayoung, et al.
Published: (2025)
AlphaFold Meets Flow Matching for Generating Protein Ensembles
by: Jing, Bowen, et al.
Published: (2024)
by: Jing, Bowen, et al.
Published: (2024)
Energy-Based Flow Matching for Generating 3D Molecular Structure
by: Zhou, Wenyin, et al.
Published: (2025)
by: Zhou, Wenyin, et al.
Published: (2025)
RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching
by: Nori, Divya, et al.
Published: (2024)
by: Nori, Divya, et al.
Published: (2024)
ProtFlow: Fast Protein Sequence Design via Flow Matching on Compressed Protein Language Model Embeddings
by: Kong, Zitai, et al.
Published: (2025)
by: Kong, Zitai, et al.
Published: (2025)
Integrating Protein Dynamics into Structure-Based Drug Design via Full-Atom Stochastic Flows
by: Zhou, Xiangxin, et al.
Published: (2025)
by: Zhou, Xiangxin, et al.
Published: (2025)
Dirichlet Flow Matching with Applications to DNA Sequence Design
by: Stark, Hannes, et al.
Published: (2024)
by: Stark, Hannes, et al.
Published: (2024)
RNACG: A Universal RNA Sequence Conditional Generation model based on Flow-Matching
by: Gao, Letian, et al.
Published: (2024)
by: Gao, Letian, et al.
Published: (2024)
RNA-FrameFlow: Flow Matching for de novo 3D RNA Backbone Design
by: Anand, Rishabh, et al.
Published: (2024)
by: Anand, Rishabh, et al.
Published: (2024)
Multi-Objective-Guided Discrete Flow Matching for Controllable Biological Sequence Design
by: Chen, Tong, et al.
Published: (2025)
by: Chen, Tong, et al.
Published: (2025)
SynFlowNet: Design of Diverse and Novel Molecules with Synthesis Constraints
by: Cretu, Miruna, et al.
Published: (2024)
by: Cretu, Miruna, et al.
Published: (2024)
Flow Autoencoders are Effective Protein Tokenizers
by: Dilip, Rohit, et al.
Published: (2025)
by: Dilip, Rohit, et al.
Published: (2025)
Out of Many, One: Designing and Scaffolding Proteins at the Scale of the Structural Universe with Genie 2
by: Lin, Yeqing, et al.
Published: (2024)
by: Lin, Yeqing, et al.
Published: (2024)
ProteinWeaver: A Divide-and-Assembly Approach for Protein Backbone Design
by: Ma, Yiming, et al.
Published: (2024)
by: Ma, Yiming, et al.
Published: (2024)
Open-Source Protein Language Models for Function Prediction and Protein Design
by: Pandi, Shivasankaran Vanaja, et al.
Published: (2024)
by: Pandi, Shivasankaran Vanaja, et al.
Published: (2024)
Conformation-Aware Structure Prediction of Antigen-Recognizing Immune Proteins
by: Dreyer, Frédéric A., et al.
Published: (2025)
by: Dreyer, Frédéric A., et al.
Published: (2025)
Structure-based Drug Design with Equivariant Diffusion Models
by: Schneuing, Arne, et al.
Published: (2022)
by: Schneuing, Arne, et al.
Published: (2022)
Structure-Informed Protein Language Model
by: Zhang, Zuobai, et al.
Published: (2024)
by: Zhang, Zuobai, et al.
Published: (2024)
FlowMol3: Flow Matching for 3D De Novo Small-Molecule Generation
by: Dunn, Ian, et al.
Published: (2025)
by: Dunn, Ian, et al.
Published: (2025)
Deep Learning for Protein Complex Prediction and Design
by: Xie, Ziwei
Published: (2026)
by: Xie, Ziwei
Published: (2026)
Function-Guided Conditional Generation Using Protein Language Models with Adapters
by: Yang, Jason, et al.
Published: (2024)
by: Yang, Jason, et al.
Published: (2024)
NeuralPLexer3: Accurate Biomolecular Complex Structure Prediction with Flow Models
by: Qiao, Zhuoran, et al.
Published: (2024)
by: Qiao, Zhuoran, et al.
Published: (2024)
PPFlow: Target-aware Peptide Design with Torsional Flow Matching
by: Lin, Haitao, et al.
Published: (2024)
by: Lin, Haitao, et al.
Published: (2024)
Structure Language Models for Protein Conformation Generation
by: Lu, Jiarui, et al.
Published: (2024)
by: Lu, Jiarui, et al.
Published: (2024)
Protein Inverse Folding From Structure Feedback
by: Xu, Junde, et al.
Published: (2025)
by: Xu, Junde, et al.
Published: (2025)
PI-Mamba: Linear-Time Protein Backbone Generation via Spectrally Initialized Flow Matching
by: Wu, Tianyu, et al.
Published: (2026)
by: Wu, Tianyu, et al.
Published: (2026)
MOFFlow: Flow Matching for Structure Prediction of Metal-Organic Frameworks
by: Kim, Nayoung, et al.
Published: (2024)
by: Kim, Nayoung, et al.
Published: (2024)
Importance Weighted Expectation-Maximization for Protein Sequence Design
by: Song, Zhenqiao, et al.
Published: (2023)
by: Song, Zhenqiao, et al.
Published: (2023)
AtomSurf : Surface Representation for Learning on Protein Structures
by: Mallet, Vincent, et al.
Published: (2023)
by: Mallet, Vincent, et al.
Published: (2023)
Exploring Discrete Flow Matching for 3D De Novo Molecule Generation
by: Dunn, Ian, et al.
Published: (2024)
by: Dunn, Ian, et al.
Published: (2024)
Full-Atom Peptide Design based on Multi-modal Flow Matching
by: Li, Jiahan, et al.
Published: (2024)
by: Li, Jiahan, et al.
Published: (2024)
Constrained Diffusion for Protein Design with Hard Structural Constraints
by: Christopher, Jacob K., et al.
Published: (2025)
by: Christopher, Jacob K., et al.
Published: (2025)
SurfPro: Functional Protein Design Based on Continuous Surface
by: Song, Zhenqiao, et al.
Published: (2024)
by: Song, Zhenqiao, et al.
Published: (2024)
A Model-Centric Review of Deep Learning for Protein Design
by: Kyro, Gregory W., et al.
Published: (2025)
by: Kyro, Gregory W., et al.
Published: (2025)
Similar Items
-
Learning conformational ensembles of proteins based on backbone geometry
by: Wolf, Nicolas, et al.
Published: (2025) -
Generating Highly Designable Proteins with Geometric Algebra Flow Matching
by: Wagner, Simon, et al.
Published: (2024) -
Grappa -- A Machine Learned Molecular Mechanics Force Field
by: Seute, Leif, et al.
Published: (2024) -
Learning Potential Energy Surfaces of Hydrogen Atom Transfer Reactions in Peptides
by: Neubert, Marlen, et al.
Published: (2025) -
Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation
by: Huguet, Guillaume, et al.
Published: (2024)