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Protein Language Model

Use of protein language models in protein property prediction

Papers

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Showing 1–50 of 73 papers

TitleStatusHype
Simulating 500 million years of evolution with a language modelCode7
DPLM-2: A Multimodal Diffusion Protein Language ModelCode3
Diffusion Language Models Are Versatile Protein LearnersCode3
Structure-Aligned Protein Language ModelCode2
Retrieval-Enhanced Mutation Mastery: Augmenting Zero-Shot Prediction of Protein Language ModelCode2
AntiFold: Improved antibody structure-based design using inverse foldingCode2
ESM All-Atom: Multi-scale Protein Language Model for Unified Molecular ModelingCode2
AbRank: A Benchmark Dataset and Metric-Learning Framework for Antibody-Antigen Affinity RankingCode1
Learning to engineer protein flexibilityCode1
Multi-Scale Representation Learning for Protein Fitness PredictionCode1
Expert-guided protein language models enable accurate and blazingly fast fitness predictionCode1
Long-context Protein Language Modeling Using Bidirectional Mamba with Shared Projection LayersCode1
Peptide-GPT: Generative Design of Peptides using Generative Pre-trained Transformers and Bio-informatic SupervisionCode1
Robust Optimization in Protein Fitness Landscapes Using Reinforcement Learning in Latent SpaceCode1
Structure-Informed Protein Language ModelCode1
Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language modelCode1
PETA: Evaluating the Impact of Protein Transfer Learning with Sub-word Tokenization on Downstream ApplicationsCode1
PeptideBERT: A Language Model based on Transformers for Peptide Property PredictionCode1
Improving antibody language models with native pairingCode1
Pairing interacting protein sequences using masked language modelingCode1
Protein-DNA binding sites prediction based on pre-trained protein language model and contrastive learningCode1
Plug & Play Directed Evolution of Proteins with Gradient-based Discrete MCMCCode1
Protein Language Models and Structure Prediction: Connection and ProgressionCode1
DistilProtBert: A distilled protein language model used to distinguish between real proteins and their randomly shuffled counterpartsCode1
Generative power of a protein language model trained on multiple sequence alignmentsCode1
Structure-aware Protein Self-supervised LearningCode1
ECRECer: Enzyme Commission Number Recommendation and Benchmarking based on Multiagent Dual-core LearningCode1
Algorithm for Optimized mRNA Design Improves Stability and ImmunogenicityCode1
Protein Design with Dynamic Protein Vocabulary—0
Leveraging Protein Language Model Embeddings for Catalytic Turnover Prediction of Adenylate Kinase Orthologs in a Low-Data RegimeCode0
ProtFlow: Fast Protein Sequence Design via Flow Matching on Compressed Protein Language Model Embeddings—0
Customizing Spider Silk: Generative Models with Mechanical Property Conditioning for Protein Engineering—0
Chem42: a Family of chemical Language Models for Target-aware Ligand Generation—0
ExPath: Towards Explaining Targeted Pathways for Biological Knowledge Bases—0
InfoBridge: Mutual Information estimation via Bridge Matching—0
Comprehensive Assessment of BERT-Based Methods for Predicting Antimicrobial PeptidesCode0
Pre-trained protein language model for codon optimization—0
DapPep: Domain Adaptive Peptide-agnostic Learning for Universal T-cell Receptor-antigen Binding Affinity Prediction—0
High fitness paths can connect proteins with low sequence overlap—0
Fine-tuning the ESM2 protein language model to understand the functional impact of missense variantsCode0
DrugTar Improves Druggability Prediction by Integrating Large Language Models and Gene OntologiesCode0
Approximating mutual information of high-dimensional variables using learned representations—0
Peptide Sequencing Via Protein Language Models—0
tcrLM: a lightweight protein language model for predicting T cell receptor and epitope binding specificityCode0
Beyond ESM2: Graph-Enhanced Protein Sequence Modeling with Efficient Clustering—0
Detection of circular permutations by Protein Language ModelsCode0
AMPCliff: quantitative definition and benchmarking of activity cliffs in antimicrobial peptidesCode0
DisorderUnetLM: Validating ProteinUnet for efficient protein intrinsic disorder prediction—0
On Recovering Higher-order Interactions from Protein Language ModelsCode0
Application of Quantum Tensor Networks for Protein Classification—0
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