Artificial intelligence in drug design

G Hessler, KH Baringhaus - Molecules, 2018 - mdpi.com
Artificial Intelligence (AI) plays a pivotal role in drug discovery. In particular artificial neural
networks such as deep neural networks or recurrent networks drive this area. Numerous …

From machine learning to deep learning: Advances in scoring functions for protein–ligand docking

C Shen, J Ding, Z Wang, D Cao… - Wiley Interdisciplinary …, 2020 - Wiley Online Library
Molecule docking has been regarded as a routine tool for drug discovery, but its accuracy
highly depends on the reliability of scoring functions (SFs). With the rapid development of …

Structure-aware interactive graph neural networks for the prediction of protein-ligand binding affinity

S Li, J Zhou, T Xu, L Huang, F Wang, H Xiong… - Proceedings of the 27th …, 2021 - dl.acm.org
Drug discovery often relies on the successful prediction of protein-ligand binding affinity.
Recent advances have shown great promise in applying graph neural networks (GNNs) for …

Potential of quantum computing for drug discovery

Y Cao, J Romero… - IBM Journal of Research …, 2018 - ieeexplore.ieee.org
Quantum computing has rapidly advanced in recent years due to substantial development in
both hardware and algorithms. These advances are carrying quantum computers closer to …

Machine learning classification can reduce false positives in structure-based virtual screening

YO Adeshina, EJ Deeds… - Proceedings of the …, 2020 - National Acad Sciences
With the recent explosion in the size of libraries available for screening, virtual screening is
positioned to assume a more prominent role in early drug discovery's search for active …

Insights into the molecular mechanisms of protein‐ligand interactions by molecular docking and molecular dynamics simulation: a case of oligopeptide binding protein

Y Fu, J Zhao, Z Chen - Computational and mathematical …, 2018 - Wiley Online Library
Protein‐ligand interactions are a necessary prerequisite for signal transduction,
immunoreaction, and gene regulation. Protein‐ligand interaction studies are important for …

Comparison study of computational prediction tools for drug-target binding affinities

M Thafar, AB Raies, S Albaradei, M Essack… - Frontiers in …, 2019 - frontiersin.org
The drug development is generally arduous, costly, and success rates are low. Thus, the
identification of drug-target interactions (DTIs) has become a crucial step in early stages of …

RNA–ligand molecular docking: Advances and challenges

Y Zhou, Y Jiang, SJ Chen - Wiley Interdisciplinary Reviews …, 2022 - Wiley Online Library
With rapid advances in computer algorithms and hardware, fast and accurate virtual
screening has led to a drastic acceleration in selecting potent small molecules as drug …

DeepBindRG: a deep learning based method for estimating effective protein–ligand affinity

H Zhang, L Liao, KM Saravanan, P Yin, Y Wei - PeerJ, 2019 - peerj.com
Proteins interact with small molecules to modulate several important cellular functions. Many
acute diseases were cured by small molecule binding in the active site of protein either by …

Using attribution to decode binding mechanism in neural network models for chemistry

K McCloskey, A Taly, F Monti… - Proceedings of the …, 2019 - National Acad Sciences
Deep neural networks have achieved state-of-the-art accuracy at classifying molecules with
respect to whether they bind to specific protein targets. A key breakthrough would occur if …