Cover Image

Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Huguet, Guillaume, Vuckovic, James, Fatras, Kilian, Thibodeau-Laufer, Eric, Lemos, Pablo, Islam, Riashat, Liu, Cheng-Hao, Rector-Brooks, Jarrid, Akhound-Sadegh, Tara, Bronstein, Michael, Tong, Alexander, Bose, Avishek Joey
Format:	Preprint
Published:	2024
Subjects:	Machine Learning Biomolecules
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

SE(3)-Stochastic Flow Matching for Protein Backbone Generation
by: Bose, Avishek Joey, et al.
Published: (2023)

Reinforcement Learning for Sequence Design Leveraging Protein Language Models
by: Subramanian, Jithendaraa, et al.
Published: (2024)

Score-Based Generative Models for Designing Binding Peptide Backbones
by: Boom, John D, et al.
Published: (2023)

Iterated Denoising Energy Matching for Sampling from Boltzmann Densities
by: Akhound-Sadegh, Tara, et al.
Published: (2024)

RNA-FrameFlow: Flow Matching for de novo 3D RNA Backbone Design
by: Anand, Rishabh, et al.
Published: (2024)

Dirichlet Flow Matching with Applications to DNA Sequence Design
by: Stark, Hannes, et al.
Published: (2024)

PI-Mamba: Linear-Time Protein Backbone Generation via Spectrally Initialized Flow Matching
by: Wu, Tianyu, et al.
Published: (2026)

Improving and generalizing flow-based generative models with minibatch optimal transport
by: Tong, Alexander, et al.
Published: (2023)

Minimal-Action Discrete Schrödinger Bridge Matching for Peptide Sequence Design
by: Goel, Shrey, et al.
Published: (2026)

Torsion-Space Diffusion for Protein Backbone Generation with Geometric Refinement
by: Singh, Lakshaditya, et al.
Published: (2025)

Multi-Objective-Guided Discrete Flow Matching for Controllable Biological Sequence Design
by: Chen, Tong, et al.
Published: (2025)

RNACG: A Universal RNA Sequence Conditional Generation model based on Flow-Matching
by: Gao, Letian, et al.
Published: (2024)

Gumbel-Softmax Flow Matching with Straight-Through Guidance for Controllable Biological Sequence Generation
by: Tang, Sophia, et al.
Published: (2025)

RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching
by: Nori, Divya, et al.
Published: (2024)

ProteinWeaver: A Divide-and-Assembly Approach for Protein Backbone Design
by: Ma, Yiming, et al.
Published: (2024)

Inverse problems with experiment-guided AlphaFold
by: Maddipatla, Advaith, et al.
Published: (2025)

EnzyControl: Adding Functional and Substrate-Specific Control for Enzyme Backbone Generation
by: Song, Chao, et al.
Published: (2025)

Peptide Sequencing Via Protein Language Models
by: Pham, Thuong Le Hoai, et al.
Published: (2024)

Matching biomolecular structures by registration of point clouds
by: Habeck, Michael, et al.
Published: (2024)

Diffusion Sequence Models for Enhanced Protein Representation and Generation
by: Hallee, Logan, et al.
Published: (2025)

Design of Ligand-Binding Proteins with Atomic Flow Matching
by: Liu, Junqi, et al.
Published: (2024)

Generalized Protein Pocket Generation with Prior-Informed Flow Matching
by: Zhang, Zaixi, et al.
Published: (2024)

Joint Design of 5' Untranslated Region and Coding Sequence of mRNA
by: Liu, Yang, et al.
Published: (2024)

Remodeling Peptide-MHC-TCR Triad Binding as Sequence Fusion for Immunogenicity Prediction
by: Ma, Jiahao, et al.
Published: (2025)

SCOP: A Sequence-Structure Contrast-Aware Framework for Protein Function Prediction
by: Ma, Runze, et al.
Published: (2024)

Leveraging Sequence Purification for Accurate Prediction of Multiple Conformational States with AlphaFold2
by: Xing, Enming, et al.
Published: (2025)

MarS-FM: Generative Modeling of Molecular Dynamics via Markov State Models
by: Kapuśniak, Kacper, et al.
Published: (2025)

Rotational Dynamics of ATP Synthase: Mechanical Constraints and Energy Dissipative Channels
by: Matar, Islam K., et al.
Published: (2025)

Ligand Pose Generation via QUBO-Based Hotspot Sampling and Geometric Triplet Matching
by: Yang, Pei-Kun
Published: (2025)

STELLA: A Multimodal LLM for Protein Functional Annotation via Unified Sequence-Structure Encoding
by: Xiao, Hongwang, et al.
Published: (2025)

BEER: Biochemical Estimator and Explorer of Residues -- A Comprehensive Software Suite for Protein Sequence Analysis
by: Mukherjee, Saumyak
Published: (2025)

MAP Format for Representing Chemical Modifications, Annotations, and Mutations in Protein Sequences: An Extension of the FASTA Format
by: Shendre, Akshay, et al.
Published: (2025)

Consistent Synthetic Sequences Unlock Structural Diversity in Fully Atomistic De Novo Protein Design
by: Reidenbach, Danny, et al.
Published: (2025)

RiboFlow: Conditional De Novo RNA Co-Design via Synergistic Flow Matching
by: Ma, Runze, et al.
Published: (2025)

Towards Universal Spatial Transcriptomics Super-Resolution: A Generalist Physically Consistent Flow Matching Framework
by: Huang, Xinlei, et al.
Published: (2026)

MP2D: Constrained Monte Carlo Tree-Guided Diffusion for Multi-Objective Protein Sequence Design
by: Kong, Zitai, et al.
Published: (2026)

Single-Sequence-Based Protein Secondary Structure Prediction using One-Hot and Chemical Encodings of Amino Acids
by: Trinh, Hoa, et al.
Published: (2024)

PepMLM: Target Sequence-Conditioned Generation of Therapeutic Peptide Binders via Span Masked Language Modeling
by: Chen, Tianlai, et al.
Published: (2023)

Visualizing Poloidal Orientation in DNA Minicircles
by: Lemos, Tony, et al.
Published: (2025)

Flow-Based Fragment Identification via Binding Site-Specific Latent Representations
by: Neeser, Rebecca Manuela, et al.
Published: (2025)