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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
AbRank: A Benchmark Dataset and Metric-Learning Framework for Antibody-Antigen Affinity RankingCode1
Protein Design with Dynamic Protein Vocabulary—0
Structure-Aligned Protein Language ModelCode2
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
Simulating 500 million years of evolution with a language modelCode7
Comprehensive Assessment of BERT-Based Methods for Predicting Antimicrobial PeptidesCode0
Learning to engineer protein flexibilityCode1
Pre-trained protein language model for codon optimization—0
Multi-Scale Representation Learning for Protein Fitness PredictionCode1
DapPep: Domain Adaptive Peptide-agnostic Learning for Universal T-cell Receptor-antigen Binding Affinity Prediction—0
Expert-guided protein language models enable accurate and blazingly fast fitness predictionCode1
High fitness paths can connect proteins with low sequence overlap—0
Long-context Protein Language Modeling Using Bidirectional Mamba with Shared Projection LayersCode1
Retrieval-Enhanced Mutation Mastery: Augmenting Zero-Shot Prediction of Protein Language ModelCode2
Peptide-GPT: Generative Design of Peptides using Generative Pre-trained Transformers and Bio-informatic SupervisionCode1
DPLM-2: A Multimodal Diffusion Protein Language ModelCode3
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
Robust Optimization in Protein Fitness Landscapes Using Reinforcement Learning in Latent SpaceCode1
AntiFold: Improved antibody structure-based design using inverse foldingCode2
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
Diffusion on language model encodings for protein sequence generation—0
ESM All-Atom: Multi-scale Protein Language Model for Unified Molecular ModelingCode2
A Protein Structure Prediction Approach Leveraging Transformer and CNN Integration—0
Diffusion Language Models Are Versatile Protein LearnersCode3
ProtIR: Iterative Refinement between Retrievers and Predictors for Protein Function Annotation—0
Decoupled Sequence and Structure Generation for Realistic Antibody DesignCode0
Structure-Informed Protein Language ModelCode1
xTrimoPGLM: Unified 100B-Scale Pre-trained Transformer for Deciphering the Language of Protein—0
CrossBind: Collaborative Cross-Modal Identification of Protein Nucleic-Acid-Binding ResiduesCode0
Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language modelCode1
Protein Language Model-Powered 3D Ligand Binding Site Prediction from Protein Sequence—0
ESM-NBR: fast and accurate nucleic acid-binding residue prediction via protein language model feature representation and multi-task learningCode0
ProPath: Disease-Specific Protein Language Model for Variant Pathogenicity—0
PETA: Evaluating the Impact of Protein Transfer Learning with Sub-word Tokenization on Downstream ApplicationsCode1
ForceGen: End-to-end de novo protein generation based on nonlinear mechanical unfolding responses using a protein language diffusion model—0
Cognate Transformer for Automated Phonological Reconstruction and Cognate Reflex PredictionCode0
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