An implementation of ESM2 in Equinox+JAX
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Apr 20, 2026 - Python
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esm2
Here are 58 public repositories matching this topic...
End-to-end protein function prediction from structure alone: active sites, binding pockets, GO terms, PPI partners, and drug candidates.
open-source bioinformatics cheminformatics protein-structure computational-biology drug-discovery protein-function-prediction alphafold esm2 active-site-prediction
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May 22, 2026 - Python
Prediction of anti-fungal proteins using protein language models
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May 8, 2026 - Python
AI-powered protein mutation analysis platform. Enter any UniProt ID, mutate a residue, and SERAPH, an original ESM2+CNN+BiLSTM model, predicts exactly which secondary structures change and why.
machine-learning bioinformatics deep-learning structural-biology nextjs protein-structure computational-biology pytorch bilstm secondary-structure-prediction cnn-bilstm protein-mutations fastapi framer-motion alphafold protein-language-model gemini-ai esm2 mutantscope
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Jul 4, 2026 - Jupyter Notebook
Repository of the paper "Exploring sequence landscape of biosynthetic gene clusters with protein language models" published at ICML2024 workshop Machine Learning for Life and Material Science: From Theory to Industry applications
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Apr 25, 2026 - Jupyter Notebook
Similarity search for protein sequences using ESM-2 embeddings and Approximate Nearest Neighbor (ANN) methods.
bioinformatics blast twilight-zone protein-embeddings remote-homology-detection esm2 protein-similarity
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Feb 25, 2026 - Python
Antimicrobial peptide discovery via ESM-2 fine-tuning. LoRA training on ESCAPE/GenPept-Curated-2025/PepBenchmark with multilabel evaluation.
machine-learning bioinformatics drug-discovery lora antimicrobial-peptides protein-language-model esm2
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Jun 2, 2026 - Python
Bioinformatics Kaggle project for prime editing RT activity prediction using leave-one-family-out cross-validation and CLS-oriented modeling.
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Apr 23, 2026 - Jupyter Notebook
Residue-residue contact prediction using ESM2 enhanced with template-based structural priors from homologous sequences.
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Oct 25, 2025 - Python
Construct-validity audit of the standard blood–brain barrier (BBB) peptide benchmark: an identity-controlled re-evaluation + shared-source provenance/overlap map, with an open, CPU-reproducible evaluation harness. Do these predictors measure penetration, or their benchmarks?
bootstrap benchmark machine-learning bioinformatics computational-biology open-science reproducibility peptides data-leakage drug-delivery blood-brain-barrier construct-validity protein-language-models esm2
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Jul 3, 2026 - Python
🧬 SUCF: 结构门控的跨模态融合网络 — 通过融合蛋白质序列和结构信息预测生物活性，使用 pLDDT 门控 RGAT + Mamba 融合，Baseline 93.89% Accuracy
bioinformatics deep-learning pytorch protein fusion cross-modal mamba graph-neural-network esm2 antimicrobial-peptide
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May 21, 2026 - Python
Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention.
docker machine-learning bioinformatics deep-learning protein-structure transformers pytorch hydra drug-discovery structural-bioinformatics mlops pytorch-lightning protein-language-models esm2 binding-site-prediction
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Jun 29, 2026 - Python
Real-time, zero-shot Variant Effect Prediction (VEP) and in-silico mutagenesis engine powered by Meta's ESM-2. Achieves sub-second inference on edge and consumer hardware.
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Apr 16, 2026 - Python
AI-guided protein mutation design tool. ESM-2 scoring + 3Dmol.js viewer + DeepSeek AI tutor.
bioinformatics structural-biology pdb pytorch protein-design mutation-analysis protein-engineering fastapi deepseek esm2
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May 27, 2026 - Python
Unified Python library and CLI for protein structure prediction and inverse folding.
python cli bioinformatics deep-learning structural-biology transformers computational-biology pytorch protein-design inverse-folding protein-structure-prediction alphafold2 alphafold-multimer directed-evolution esmfold esm2 esm-if proteinmpnn ligandmpnn ai4protein
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Feb 16, 2026 - Python
Zero-shot variant pathogenicity prediction via spectral covariance analysis of ESM2 hidden states | Claw4S 2026
bioinformatics computational-biology reproducibility clinvar spectral-analysis zero-shot variant-effect-prediction protein-language-model esm2 claw4s-2026
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Apr 22, 2026 - Python
Information-optimal experimental budget allocation for mapping protein epistasis (zero-shot, ESM-2). Validates on GB1 complete landscape.
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Jul 10, 2026 - Python
Fine-tuning ESM-2 with LoRA for enzyme family classification. Homology-aware splitting, calibrated uncertainty, integrated gradients interpretability, and FastAPI inference. Built for production.
structural-biology pytorch drug-discovery lora uncertainty-quantification interpretability fine-tuning enzyme-classification protein-language-model esm2
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Jun 6, 2026 - Python
Dual-scale peptide property prediction with atom/residue encoders and cross-attention fusion.
bioinformatics pytorch drug-discovery rdkit multimodal-learning peptide-prediction cross-attention protein-ai esm2 peptide-ai
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Apr 19, 2026 - Jupyter Notebook
Federated learning framework for protein language models (ESM2) using NVFlare + Flower. Supports multi-GPU simulation, HPC/SLURM deployment, and HuggingFace dataset integration.
machine-learning bioinformatics pytorch flower federated-learning protein-language-model nvflare esm2
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Mar 15, 2026 - Python
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