zjunlp / OntoProtein
[ICLR 2022] OntoProtein: Protein Pretraining With Gene Ontology Embedding
☆146Updated this week
Alternatives and similar repositories for OntoProtein:
Users that are interested in OntoProtein are comparing it to the libraries listed below
- [ICML-23 ORAL] ProtST: Multi-Modality Learning of Protein Sequences and Biomedical Texts☆93Updated last year
- Code and data for the Nature Machine Intelligence paper "Knowledge graph-enhanced molecular contrastive learning with functional prompt".☆121Updated 11 months ago
- ☆127Updated 2 years ago
- Must-read papers on NLP for science.☆58Updated last year
- [ICLR 2024] Domain-Agnostic Molecular Generation with Chemical Feedback☆151Updated 2 months ago
- PEER Benchmark, appear at NeurIPS 2022 Dataset and Benchmark Track (https://arxiv.org/abs/2206.02096)☆88Updated last year
- Awesome-Biomolecule-Language-Cross-Modeling: a curated list of resources for paper "Leveraging Biomolecule and Natural Language through M…☆200Updated 4 months ago
- BioT5 (EMNLP 2023) and BioT5+ (ACL 2024 Findings)☆106Updated 5 months ago
- Exploring Evolution-aware & free protein language models as protein function predictors☆63Updated 5 months ago
- [ACL 2024] ProtLLM: An Interleaved Protein-Language LLM with Protein-as-Word Pre-Training☆43Updated 11 months ago
- Interpretable bilinear attention network with domain adaptation improves drug-target prediction.☆117Updated 2 years ago
- [Bioinformatics 2021] This is the repo for the paper `SumGNN: Multi-typed Drug Interaction Prediction via Efficient Knowledge Graph Summa…☆85Updated 7 months ago
- GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)☆282Updated last year
- A Text-guided Protein Design Framework, Nat Mach Intell 2025☆54Updated 2 months ago
- [RECOMB 2023] Official implementation of "Pisces: A combo-wise contrastive learning approach to synergistic drug combination prediction".☆14Updated last year
- Protein Language Model☆116Updated last year
- Associated Repository for "Translation between Molecules and Natural Language"☆169Updated last year
- ☆84Updated last year
- Code and Data for the paper: Molecular Contrastive Learning with Chemical Element Knowledge Graph [AAAI 2022]☆89Updated last year
- ☆35Updated last year
- Codes and models for the paper "Learning Unknown from Correlations: Graph Neural Network for Inter-novel-protein Interaction Prediction".☆77Updated 3 years ago
- MSAGPT☆29Updated 3 months ago
- SSM-DTA: Breaking the Barriers of Data Scarcity in Drug-Target Affinity Prediction (Briefings in Bioinformatics 2023)☆52Updated 9 months ago
- Protein-Nucleic Acid Complex Modeling with Frame Averaging Transformer, NeurIPS2024☆25Updated 4 months ago
- Code and data for the Nature Machine Intelligence paper "Knowledge graph-enhanced molecular contrastive learning with functional prompt".☆10Updated last year
- [ICLR 2024] Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language Models☆269Updated 4 months ago
- The first large protein language model trained follows structure instructions.☆75Updated 9 months ago
- Source code for "A Deep-learning System Bridging Molecule Structure and Biomedical Text with Comprehension Comparable to Human Profession…☆86Updated last year
- PyTorch code for KDD 2023 paper "Pre-training Antibody Language Models for Antigen-Specific Computational Antibody Design"☆50Updated last year
- Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models …☆224Updated 10 months ago