Knowledge-enhanced learned representation enriches protein sequence and SMILES drug databases with a large Knowledge Graph fused from different sources. This improves results on TDC drug target binding affinity prediction benchmarks.
☆62Feb 4, 2026Updated last month
Alternatives and similar repositories for otter-knowledge
Users that are interested in otter-knowledge are comparing it to the libraries listed below
Sorting:
- The repo consists of a Python package that works with functional data. In particular, it includes two distinct methodologies: Functional …☆13Sep 18, 2025Updated 6 months ago
- AutoML system for building trustworthy peptide bioactivity predictors☆37Mar 2, 2026Updated 2 weeks ago
- Ontology representing a 360-view of a person (or cohort) that spans across multiple domains, from health to social.☆35Sep 17, 2025Updated 6 months ago
- Data Privacy Toolkit☆41Feb 15, 2026Updated last month
- Utility to incrementally learn regular expressions from examples☆27Sep 18, 2025Updated 6 months ago
- GPCNDTA: prediction of drug-target binding affinity through cross-attention networks augmented with graph features and pharmacophores☆17Jan 19, 2025Updated last year
- Though language model text embeddings have revolutionized NLP research, their ability to capture high-level semantic information, such as…☆28Apr 28, 2023Updated 2 years ago
- Proof Of Concept showcasing composable GPUs in Kubernetes☆18Mar 10, 2026Updated last week
- Zero and Few shot named entity & relationships recognition☆402Sep 17, 2025Updated 6 months ago
- An extendible framework for executing benchmarks and computational experiments at scale☆39Updated this week
- ☆39Jun 3, 2024Updated last year
- A bi-directional attention neural network for compound–protein interaction and binding affinity prediction.☆33Dec 1, 2022Updated 3 years ago
- ☆22Mar 2, 2025Updated last year
- 3DProtDTA: a deep learning model for drug-target affinity prediction based on residue-level protein graphs☆26Mar 31, 2023Updated 2 years ago
- DeepDrugDomain: A versatile Python toolkit for streamlined preprocessing and accurate prediction of drug-target interactions and binding …☆28Oct 22, 2024Updated last year
- Can Text-based Knowledge Graph Completion Benefit From Zero-Shot Large Language Models?☆18Dec 9, 2024Updated last year
- Mastery of a Three-Word Language for Knowledge Graph Completion☆31Feb 24, 2025Updated last year
- A novel graph neural network strategy with the Vina distance optimization terms to predict protein-ligand binding affinity☆32May 16, 2024Updated last year
- A Generative Adversarial Network Model Alternative to Animal Studies for Clinical Pathology Assessment☆15Jan 10, 2024Updated 2 years ago
- Independent evaluation set construction for trustworthy ML models in biochemistry☆16Updated this week
- DrugGen: Advancing Drug Discovery with Large Language Models and Reinforcement Learning Feedback☆21May 22, 2025Updated 9 months ago
- Official implementation for the paper "EBMDOCK: NEURAL PROBABILISTIC PROTEIN-PROTEIN DOCKING VIA A DIFFERENTIABLE ENERGY-BASED MODEL" (IC…☆14Apr 24, 2024Updated last year
- ☆14Apr 10, 2024Updated last year
- ☆13Oct 19, 2023Updated 2 years ago
- Benchmark gene representations from different model families☆15May 29, 2025Updated 9 months ago
- ☆19Sep 4, 2025Updated 6 months ago
- ICLR'24 | BioBridge: Bridging Biomedical Foundation Models via Knowledge Graphs☆77May 10, 2024Updated last year
- ☆31Nov 23, 2025Updated 3 months ago
- Code for the paper Enhancing Activity Prediction Models in Drug Discovery with the Ability to Understand Human Language☆109Feb 26, 2026Updated 3 weeks ago
- [LREC-COLING 2024] Multi-perspective Improvement of Knowledge Graph Completion with Large Language Models☆54May 13, 2025Updated 10 months ago
- Fine-tuning of ChemBERTA LLMs to predict molecules' HIV inhibition replication.☆35Sep 15, 2023Updated 2 years ago
- Code for InstructBioMol, implementing the Nature Machine Intelligence paper "Advancing Biomolecular Understanding and Design Following Hu…☆31Aug 2, 2025Updated 7 months ago
- ☆12Apr 6, 2025Updated 11 months ago
- ☆59Aug 23, 2024Updated last year
- ☆35Jan 26, 2026Updated last month
- Repository for "Nearest neighbor search on embeddings rapidly identifies distant protein relations"☆13Apr 2, 2023Updated 2 years ago
- [ICLR 2024] MARCEL: Machine Learning over Molecular Conformer Ensembles☆44Jun 14, 2023Updated 2 years ago
- Drug-target binding affinity prediction using representation learning, graph mining, and machine learning☆25Mar 21, 2022Updated 4 years ago
- NP-KG: Knowledge Graph Framework for Natural Product-Drug Interactions☆19Jun 25, 2024Updated last year