Geometric deep learning for drug discovery
Drug discovery is a time-consuming and expensive process. With the development of
Artificial Intelligence (AI) techniques, molecular Geometric Deep Learning (GDL) has …
Artificial Intelligence (AI) techniques, molecular Geometric Deep Learning (GDL) has …
[HTML][HTML] Protein representations: Encoding biological information for machine learning in biocatalysis
D Harding-Larsen, J Funk, NG Madsen… - Biotechnology …, 2024 - Elsevier
Enzymes offer a more environmentally friendly and low-impact solution to conventional
chemistry, but they often require additional engineering for their application in industrial …
chemistry, but they often require additional engineering for their application in industrial …
DeepCompoundNet: enhancing compound–protein interaction prediction with multimodal convolutional neural networks
F Palhamkhani, M Alipour, A Dehnad… - Journal of …, 2025 - Taylor & Francis
Virtual screening has emerged as a valuable computational tool for predicting compound–
protein interactions, offering a cost-effective and rapid approach to identifying potential …
protein interactions, offering a cost-effective and rapid approach to identifying potential …
Efficient deep model ensemble framework for drug-target interaction prediction
Accurate prediction of Drug-Target Interactions (DTI) is crucial for drug development. Current
state-of-the-art deep learning methods have significantly advanced the field; however, these …
state-of-the-art deep learning methods have significantly advanced the field; however, these …
Binding affinity predictions with hybrid quantum-classical convolutional neural networks
Central in drug design is the identification of biomolecules that uniquely and robustly bind to
a target protein, while minimizing their interactions with others. Accordingly, precise binding …
a target protein, while minimizing their interactions with others. Accordingly, precise binding …
A systematic survey in geometric deep learning for structure-based drug design
Structure-based drug design (SBDD) utilizes the three-dimensional geometry of proteins to
identify potential drug candidates. Traditional methods, grounded in physicochemical …
identify potential drug candidates. Traditional methods, grounded in physicochemical …
Data‐Driven Protein Engineering for Improving Catalytic Activity and Selectivity
YF Ao, M Dörr, MJ Menke, S Born, E Heuson… - …, 2024 - Wiley Online Library
Protein engineering is essential for altering the substrate scope, catalytic activity and
selectivity of enzymes for applications in biocatalysis. However, traditional approaches, such …
selectivity of enzymes for applications in biocatalysis. However, traditional approaches, such …
Ammvf-dti: A novel model predicting drug–target interactions based on attention mechanism and multi-view fusion
L Wang, Y Zhou, Q Chen - International Journal of Molecular Sciences, 2023 - mdpi.com
Accurate identification of potential drug–target interactions (DTIs) is a crucial task in drug
development and repositioning. Despite the remarkable progress achieved in recent years …
development and repositioning. Despite the remarkable progress achieved in recent years …
Leak proof PDBBind: A reorganized dataset of protein-ligand complexes for more generalizable binding affinity prediction
Many physics-based and machine-learned scoring functions (SFs) used to predict protein-
ligand binding free energies have been trained on the PDBBind dataset. However, it is …
ligand binding free energies have been trained on the PDBBind dataset. However, it is …
SS-GNN: a simple-structured graph neural network for affinity prediction
S Zhang, Y **, T Liu, Q Wang, Z Zhang, S Zhao… - ACS …, 2023 - ACS Publications
Efficient and effective drug-target binding affinity (DTBA) prediction is a challenging task due
to the limited computational resources in practical applications and is a crucial basis for drug …
to the limited computational resources in practical applications and is a crucial basis for drug …