Cover Image

Bayesian Optimization of Antibodies Informed by a Generative Model of Evolving Sequences

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Amin, Alan Nawzad, Gruver, Nate, Kuang, Yilun, Li, Lily, Elliott, Hunter, McCarter, Calvin, Raghu, Aniruddh, Greenside, Peyton, Wilson, Andrew Gordon
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

Generative Humanization for Therapeutic Antibodies
by: Gordon, Cade, et al.
Published: (2024)

Is Sequence Information All You Need for Bayesian Optimization of Antibodies?
by: Ober, Sebastian W., et al.
Published: (2025)

Fast and Accurate Antibody Sequence Design via Structure Retrieval
by: Zhang, Xingyi, et al.
Published: (2025)

Multiscale guidance of protein structure prediction with heterogeneous cryo-EM data
by: Raghu, Rishwanth, et al.
Published: (2025)

BetterBodies: Reinforcement Learning guided Diffusion for Antibody Sequence Design
by: Vogt, Yannick, et al.
Published: (2024)

AbGPT: De Novo Antibody Design via Generative Language Modeling
by: Kuan, Desmond, et al.
Published: (2024)

Tokenizing Loops of Antibodies
by: Fang, Ada, et al.
Published: (2025)

Guided Sequence-Structure Generative Modeling for Iterative Antibody Optimization
by: Raghu, Aniruddh, et al.
Published: (2025)

Guided Generation for Developable Antibodies
by: Zhao, Siqi, et al.
Published: (2025)

Exploring AlphaFold 3 for CD47 Antibody-Antigen Binding Affinity: An Unexpected Discovery of Reverse docking
by: Xu, Yiyang, et al.
Published: (2025)

HelixDesign-Antibody: A Scalable Production-Grade Platform for Antibody Design Built on HelixFold3
by: Gao, Jie, et al.
Published: (2025)

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

Modelling multiscale architecture of biofilm extracellular matrix and its role in oxygen transport
by: Moorthy, Raghu K., et al.
Published: (2025)

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

S$^2$ALM: Sequence-Structure Pre-trained Large Language Model for Comprehensive Antibody Representation Learning
by: Yin, Mingze, et al.
Published: (2024)

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

Bayesian Uncertainty Quantification for Anaerobic Digestion models
by: Picard-Weibel, Antoine, 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)

AbDiffuser: Full-Atom Generation of in vitro Functioning Antibodies
by: Martinkus, Karolis, et al.
Published: (2023)

Towards More Accurate Full-Atom Antibody Co-Design
by: Wu, Jiayang, et al.
Published: (2025)

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

Steering Protein Family Design through Profile Bayesian Flow
by: Gong, Jingjing, et al.
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)

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

Stable Online and Offline Reinforcement Learning for Antibody CDRH3 Design
by: Vogt, Yannick, et al.
Published: (2023)

ABConformer: Physics-inspired Sliding Attention for Antibody-Antigen Interface Prediction
by: You, Zhang-Yu, et al.
Published: (2025)

Antibody DomainBed: Out-of-Distribution Generalization in Therapeutic Protein Design
by: Tagasovska, Nataša, et al.
Published: (2024)

An RNA condensate model for the origin of life
by: Fine, Jacob L., et al.
Published: (2024)

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)

TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation
by: Zongying, Lin, et al.
Published: (2024)

Antigen-Specific Antibody Design via Direct Energy-based Preference Optimization
by: Zhou, Xiangxin, et al.
Published: (2024)

Deep Learning of Proteins with Local and Global Regions of Disorder
by: Zhang, Oufan, et al.
Published: (2025)

Differential Effects of Sequence-Local versus Nonlocal Charge Patterns on Phase Separation and Conformational Dimensions of Polyampholytes as Model Intrinsically Disordered Proteins
by: Pal, Tanmoy, et al.
Published: (2024)

Curriculum Learning for Biological Sequence Prediction: The Case of De Novo Peptide Sequencing
by: Zhang, Xiang, et al.
Published: (2025)