| GraphGT: Machine Learning Datasets for Graph Generation and Transformation | Sep 24, 2021 | BIG-bench Machine LearningDrug Design | CodeCode Available | 1 |
| DeepPocket: Ligand Binding Site Detection and Segmentation using 3D Convolutional Neural Networks | Aug 10, 2021 | Drug Design | CodeCode Available | 1 |
| Improving black-box optimization in VAE latent space using decoder uncertainty | Jun 30, 2021 | DecoderDrug Design | CodeCode Available | 1 |
| Scientific Language Models for Biomedical Knowledge Base Completion: An Empirical Study | Jun 17, 2021 | Drug DesignKnowledge Base Completion | CodeCode Available | 1 |
| Artificial Intelligence in Drug Discovery: Applications and Techniques | Jun 9, 2021 | Drug DesignDrug Discovery | CodeCode Available | 1 |
| Evening the Score: Targeting SARS-CoV-2 Protease Inhibition in Graph Generative Models for Therapeutic Candidates | May 7, 2021 | Drug DesignDrug Discovery | CodeCode Available | 1 |
| Assigning Confidence to Molecular Property Prediction | Feb 23, 2021 | Drug DesignMolecular Docking | CodeCode Available | 1 |
| Investigating 3D Atomic Environments for Enhanced QSAR | Oct 24, 2020 | Drug Design | CodeCode Available | 1 |
| Multiscale Simulations of Complex Systems by Learning their Effective Dynamics | Jun 24, 2020 | Drug DesignWeather Forecasting | CodeCode Available | 1 |
| We Should at Least Be Able to Design Molecules That Dock Well | Jun 20, 2020 | Drug DesignDrug Discovery | CodeCode Available | 1 |
| A Workflow for Exploring Ligand Dissociation from a Macromolecule: Efficient Random Acceleration Molecular Dynamics Simulation and Interaction Fingerprints Analysis of Ligand Trajectories | Jun 19, 2020 | Drug Design | CodeCode Available | 1 |
| Self-Supervised Graph Transformer on Large-Scale Molecular Data | Jun 18, 2020 | Drug DesignMolecular Property Prediction | CodeCode Available | 1 |
| Sample-Efficient Optimization in the Latent Space of Deep Generative Models via Weighted Retraining | Jun 16, 2020 | Drug DesignMolecular Graph Generation | CodeCode Available | 1 |
| Drug–target affinity prediction using graph neural network and contact maps | Jun 1, 2020 | Drug DesignDrug Discovery | CodeCode Available | 1 |
| Learning To Navigate The Synthetically Accessible Chemical Space Using Reinforcement Learning | Apr 26, 2020 | Drug DesignDrug Discovery | CodeCode Available | 1 |
| Accurate Protein Structure Prediction by Embeddings and Deep Learning Representations | Nov 9, 2019 | Deep LearningDrug Design | CodeCode Available | 1 |
| Generating Focussed Molecule Libraries for Drug Discovery with Recurrent Neural Networks | Jan 5, 2017 | Drug DesignDrug Discovery | CodeCode Available | 1 |
| Assay2Mol: large language model-based drug design using BioAssay context | Jul 16, 2025 | DescriptiveDrug Design | CodeCode Available | 0 |
| Diverse Mini-Batch Selection in Reinforcement Learning for Efficient Chemical Exploration in de novo Drug Design | Jun 26, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Active Learning-Guided Seq2Seq Variational Autoencoder for Multi-target Inhibitor Generation | Jun 18, 2025 | Active LearningDiversity | —Unverified | 0 |
| Reimagining Target-Aware Molecular Generation through Retrieval-Enhanced Aligned Diffusion | Jun 17, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Bridging Quantum and Classical Computing in Drug Design: Architecture Principles for Improved Molecule Generation | Jun 1, 2025 | Bayesian OptimizationDrug Design | CodeCode Available | 0 |
| Large Language Models for Controllable Multi-property Multi-objective Molecule Optimization | May 29, 2025 | Drug Design | CodeCode Available | 0 |
| Beyond Chemical QA: Evaluating LLM's Chemical Reasoning with Modular Chemical Operations | May 27, 2025 | Chemical Reaction PredictionDrug Design | —Unverified | 0 |
| A Graph Completion Method that Jointly Predicts Geometry and Topology Enables Effective Molecule Assembly | May 27, 2025 | DenoisingDrug Design | —Unverified | 0 |
| Template-Guided 3D Molecular Pose Generation via Flow Matching and Differentiable Optimization | May 22, 2025 | Drug DesignPose Prediction | —Unverified | 0 |
| Evolutionary training-free guidance in diffusion model for 3D multi-objective molecular generation | May 16, 2025 | DenoisingDrug Design | —Unverified | 0 |
| Pharmacophore-Conditioned Diffusion Model for Ligand-Based De Novo Drug Design | May 15, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| A 3D pocket-aware and evolutionary conserved interaction guided diffusion model for molecular optimization | May 9, 2025 | Drug Design | —Unverified | 0 |
| Enhancing Chemical Reaction and Retrosynthesis Prediction with Large Language Model and Dual-task Learning | May 5, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Leveraging Partial SMILES Validation Scheme for Enhanced Drug Design in Reinforcement Learning Frameworks | May 1, 2025 | Deep Reinforcement LearningDrug Design | —Unverified | 0 |
| Combining GCN Structural Learning with LLM Chemical Knowledge for or Enhanced Virtual Screening | Apr 24, 2025 | Computational EfficiencyDrug Design | —Unverified | 0 |
| Synergistic Benefits of Joint Molecule Generation and Property Prediction | Apr 23, 2025 | Drug Designmolecular representation | —Unverified | 0 |
| DrugGen enhances drug discovery with large language models and reinforcement learning | Apr 18, 2025 | Drug DesignDrug Discovery | CodeCode Available | 0 |
| How to Detect and Defeat Molecular Mirage: A Metric-Driven Benchmark for Hallucination in LLM-based Molecular Comprehension | Apr 10, 2025 | Computational EfficiencyDecoder | —Unverified | 0 |
| Interpretable Multimodal Learning for Tumor Protein-Metal Binding: Progress, Challenges, and Perspectives | Apr 4, 2025 | Drug Design | —Unverified | 0 |
| HCAF-DTA: drug-target binding affinity prediction with cross-attention fused hypergraph neural networks | Apr 2, 2025 | Drug DesignPrediction | —Unverified | 0 |
| Two for the Price of One: Integrating Large Language Models to Learn Biophysical Interactions | Mar 26, 2025 | Computational EfficiencyDrug Design | —Unverified | 0 |
| TransDiffSBDD: Causality-Aware Multi-Modal Structure-Based Drug Design | Mar 26, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Extracting Interpretable Logic Rules from Graph Neural Networks | Mar 25, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Carbonic anhydrase II simulated with a universal neural network potential | Mar 18, 2025 | Drug Design | CodeCode Available | 0 |
| Linear to Neural Networks Regression: QSPR of Drugs via Degree-Distance Indices | Mar 18, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| GenShin:geometry-enhanced structural graph embodies binding pose can better predicting compound-protein interaction affinity | Mar 16, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Pretraining Generative Flow Networks with Inexpensive Rewards for Molecular Graph Generation | Mar 8, 2025 | Drug DesignGraph Generation | —Unverified | 0 |
| Integrating Protein Dynamics into Structure-Based Drug Design via Full-Atom Stochastic Flows | Mar 6, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Pushing the boundaries of Structure-Based Drug Design through Collaboration with Large Language Models | Mar 3, 2025 | Drug DesignDrug Discovery | —Unverified | 0 |
| Leveraging Sequence Purification for Accurate Prediction of Multiple Conformational States with AlphaFold2 | Feb 28, 2025 | Drug DesignProtein Structure Prediction | —Unverified | 0 |
| Lattice Protein Folding with Variational Annealing | Feb 28, 2025 | Combinatorial OptimizationDrug Design | —Unverified | 0 |
| Position: Graph Learning Will Lose Relevance Due To Poor Benchmarks | Feb 20, 2025 | BenchmarkingCombinatorial Optimization | —Unverified | 0 |
| Towards Efficient Molecular Property Optimization with Graph Energy Based Models | Feb 17, 2025 | Drug Design | —Unverified | 0 |