Scoring-Assisted Generative Exploration for Proteins (SAGE-Prot): A Framework for Multi-Objective Protein Optimization via Iterative Sequence Generation and Evaluation
Fuente:
arXiv
Enregistré dans:
| Auteurs principaux: | Lim, Hocheol, Lee, Geon-Ho, No, Kyoung Tai |
|---|---|
| Format: | Preprint |
| Publié: |
2025
|
| Sujets: | |
| Accès en ligne: | |
| Tags: |
Ajouter un tag
Pas de tags, Soyez le premier à ajouter un tag!
|
Documents similaires
Frequency-Space Mechanics: A Sequence and Coordinate-Free Representation for Protein Function Prediction
par: Reilly, Charles B
Publié: (2026)
par: Reilly, Charles B
Publié: (2026)
Characterizing the Conformational States of G Protein Coupled Receptors Generated with AlphaFold
par: Chib, Garima, et autres
Publié: (2025)
par: Chib, Garima, et autres
Publié: (2025)
Towards a Unified Framework for Determining Conformational Ensembles of Disordered Proteins
par: Ghafouri, Hamidreza, et autres
Publié: (2025)
par: Ghafouri, Hamidreza, et autres
Publié: (2025)
Conditioning Protein Generation via Hopfield Pattern Multiplicity
par: Varner, Jeffrey D.
Publié: (2026)
par: Varner, Jeffrey D.
Publié: (2026)
LAFA: A Framework for Reproducible Longitudinal Assessment of Protein Function Annotation Models
par: Phan, An, et autres
Publié: (2026)
par: Phan, An, et autres
Publié: (2026)
Robust Optimization in Protein Fitness Landscapes Using Reinforcement Learning in Latent Space
par: Lee, Minji, et autres
Publié: (2024)
par: Lee, Minji, et autres
Publié: (2024)
Persistent Sheaf Laplacian Analysis of Protein Flexibility
par: Hayes, Nicole, et autres
Publié: (2025)
par: Hayes, Nicole, et autres
Publié: (2025)
Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling
par: Lu, Jiarui, et autres
Publié: (2023)
par: Lu, Jiarui, et autres
Publié: (2023)
Impact of Force Field Polarization on Correlated Motions of Proteins
par: Milinski, Ana, et autres
Publié: (2025)
par: Milinski, Ana, et autres
Publié: (2025)
Leveraging Machine Learning Models for Peptide-Protein Interaction Prediction
par: Yin, Song, et autres
Publié: (2023)
par: Yin, Song, et autres
Publié: (2023)
Protein-Mamba: Biological Mamba Models for Protein Function Prediction
par: Xu, Bohao, et autres
Publié: (2024)
par: Xu, Bohao, et autres
Publié: (2024)
Predicting Protein-Nucleic Acid Flexibility Using Persistent Sheaf Laplacians
par: Hayes, Nicole, et autres
Publié: (2025)
par: Hayes, Nicole, et autres
Publié: (2025)
VARIANT: Web Server for Decoding and Analyzing Viral Mutations at Genome and Protein Levels
par: Wang, Rui, et autres
Publié: (2026)
par: Wang, Rui, et autres
Publié: (2026)
Improving Protein Optimization with Smoothed Fitness Landscapes
par: Kirjner, Andrew, et autres
Publié: (2023)
par: Kirjner, Andrew, et autres
Publié: (2023)
Protein folding classes -- High-dimensional geometry of amino acid composition space revisited
par: Mao, Boryeu
Publié: (2025)
par: Mao, Boryeu
Publié: (2025)
Protein Autoregressive Modeling via Multiscale Structure Generation
par: Qu, Yanru, et autres
Publié: (2026)
par: Qu, Yanru, et autres
Publié: (2026)
ODBO: Bayesian Optimization with Search Space Prescreening for Directed Protein Evolution
par: Cheng, Lixue, et autres
Publié: (2022)
par: Cheng, Lixue, et autres
Publié: (2022)
RNAGenScape: Property-Guided, Optimized Generation of mRNA Sequences with Manifold Langevin Dynamics
par: Liao, Danqi, et autres
Publié: (2025)
par: Liao, Danqi, et autres
Publié: (2025)
General Protein Pretraining or Domain-Specific Designs? Benchmarking Protein Modeling on Realistic Applications
par: Yan, Shuo, et autres
Publié: (2025)
par: Yan, Shuo, et autres
Publié: (2025)
ProteinBench: A Holistic Evaluation of Protein Foundation Models
par: Ye, Fei, et autres
Publié: (2024)
par: Ye, Fei, et autres
Publié: (2024)
Protein Fold Classification at Scale: Benchmarking and Pretraining
par: Chen, Dexiong, et autres
Publié: (2026)
par: Chen, Dexiong, et autres
Publié: (2026)
Endowing Protein Language Models with Structural Knowledge
par: Chen, Dexiong, et autres
Publié: (2024)
par: Chen, Dexiong, et autres
Publié: (2024)
GoForth: Language Models for RNA Design under Structure, Sequence, and Coding Constraints
par: Lindsey, Michael
Publié: (2026)
par: Lindsey, Michael
Publié: (2026)
Protriever: End-to-End Differentiable Protein Homology Search for Fitness Prediction
par: Weitzman, Ruben, et autres
Publié: (2025)
par: Weitzman, Ruben, et autres
Publié: (2025)
TriFit: Trimodal Fusion with Protein Dynamics for Mutation Fitness Prediction
par: Cho, Seungik
Publié: (2026)
par: Cho, Seungik
Publié: (2026)
Fusing Neural and Physical: Augment Protein Conformation Sampling with Tractable Simulations
par: Lu, Jiarui, et autres
Publié: (2024)
par: Lu, Jiarui, et autres
Publié: (2024)
Enhancing Protein Predictive Models via Proteins Data Augmentation: A Benchmark and New Directions
par: Sun, Rui, et autres
Publié: (2024)
par: Sun, Rui, et autres
Publié: (2024)
Interpretable Multimodal Learning for Tumor Protein-Metal Binding: Progress, Challenges, and Perspectives
par: Liu, Xiaokun, et autres
Publié: (2025)
par: Liu, Xiaokun, et autres
Publié: (2025)
Geometric Self-Supervised Pretraining on 3D Protein Structures using Subgraphs
par: Chatzianastasis, Michail, et autres
Publié: (2024)
par: Chatzianastasis, Michail, et autres
Publié: (2024)
ProtSCAPE: Mapping the landscape of protein conformations in molecular dynamics
par: Viswanath, Siddharth, et autres
Publié: (2024)
par: Viswanath, Siddharth, et autres
Publié: (2024)
mRNA Folding Algorithms for Structure and Codon Optimization
par: Ward, Max, et autres
Publié: (2025)
par: Ward, Max, et autres
Publié: (2025)
Raman Spectroscopy Reveals Photobiomodulation-Induced α-Helix to β-Sheet Transition in Tubulins: Potential Implications for Alzheimer's and Other Neurodegenerative Diseases
par: Di Gregorio, Elisabetta, et autres
Publié: (2023)
par: Di Gregorio, Elisabetta, et autres
Publié: (2023)
Network Pharmacology Framework Characterizes Polypharmacological Properties of Dietary Flavonoids: Integration of Computational, Experimental, and Epidemiological Evidence
par: Fujisaki, Koyo, et autres
Publié: (2026)
par: Fujisaki, Koyo, et autres
Publié: (2026)
SafeProtein: Red-Teaming Framework and Benchmark for Protein Foundation Models
par: Fan, Jigang, et autres
Publié: (2025)
par: Fan, Jigang, et autres
Publié: (2025)
MicroFuse: Protein-to-Genome Expert Fusion for Microbial Operon Reasoning
par: Cho, Seungik
Publié: (2026)
par: Cho, Seungik
Publié: (2026)
Evolutionary Profiles for Protein Fitness Prediction
par: Fan, Jigang, et autres
Publié: (2025)
par: Fan, Jigang, et autres
Publié: (2025)
Substrate Prediction for RiPP Biosynthetic Enzymes via Masked Language Modeling and Transfer Learning
par: Clark, Joseph D., et autres
Publié: (2024)
par: Clark, Joseph D., et autres
Publié: (2024)
A Multi-Modal Contrastive Diffusion Model for Therapeutic Peptide Generation
par: Wang, Yongkang, et autres
Publié: (2023)
par: Wang, Yongkang, et autres
Publié: (2023)
CPE-Pro: A Structure-Sensitive Deep Learning Method for Protein Representation and Origin Evaluation
par: Gou, Wenrui, et autres
Publié: (2024)
par: Gou, Wenrui, et autres
Publié: (2024)
A Multi-Grained Symmetric Differential Equation Model for Learning Protein-Ligand Binding Dynamics
par: Liu, Shengchao, et autres
Publié: (2024)
par: Liu, Shengchao, et autres
Publié: (2024)
Documents similaires
-
Frequency-Space Mechanics: A Sequence and Coordinate-Free Representation for Protein Function Prediction
par: Reilly, Charles B
Publié: (2026) -
Characterizing the Conformational States of G Protein Coupled Receptors Generated with AlphaFold
par: Chib, Garima, et autres
Publié: (2025) -
Towards a Unified Framework for Determining Conformational Ensembles of Disordered Proteins
par: Ghafouri, Hamidreza, et autres
Publié: (2025) -
Conditioning Protein Generation via Hopfield Pattern Multiplicity
par: Varner, Jeffrey D.
Publié: (2026) -
LAFA: A Framework for Reproducible Longitudinal Assessment of Protein Function Annotation Models
par: Phan, An, et autres
Publié: (2026)