Advances of artificial intelligence in anti-cancer drug design: a review of the past decade

L Wang, Y Song, H Wang, X Zhang, M Wang, J He… - Pharmaceuticals, 2023 - mdpi.com
Anti-cancer drug design has been acknowledged as a complicated, expensive, time-
consuming, and challenging task. How to reduce the research costs and speed up the …

In silico chemical experiments in the Age of AI: From quantum chemistry to machine learning and back

A Aldossary, JA Campos‐Gonzalez‐Angulo… - Advanced …, 2024 - Wiley Online Library
Computational chemistry is an indispensable tool for understanding molecules and
predicting chemical properties. However, traditional computational methods face significant …

DrugCLIP: Contrasive Protein-Molecule Representation Learning for Virtual Screening

B Gao, B Qiang, H Tan, Y Jia, M Ren… - Advances in …, 2024 - proceedings.neurips.cc
Virtual screening, which identifies potential drugs from vast compound databases to bind
with a particular protein pocket, is a critical step in AI-assisted drug discovery. Traditional …

BigBind: learning from nonstructural data for structure-based virtual screening

M Brocidiacono, P Francoeur, R Aggarwal… - Journal of Chemical …, 2023 - ACS Publications
Deep learning methods that predict protein–ligand binding have recently been used for
structure-based virtual screening. Many such models have been trained using protein …

A review on graph neural networks for predicting synergistic drug combinations

M Besharatifard, F Vafaee - Artificial Intelligence Review, 2024 - Springer
Combinational therapies with synergistic effects provide a powerful treatment strategy for
tackling complex diseases, particularly malignancies. Discovering these synergistic …

Neural multi-task learning in drug design

S Allenspach, JA Hiss, G Schneider - Nature Machine Intelligence, 2024 - nature.com
Multi-task learning (MTL) is a machine learning paradigm that aims to enhance the
generalization of predictive models by leveraging shared information across multiple tasks …

Knowledge-augmented graph machine learning for drug discovery: A survey from precision to interpretability

Z Zhong, A Barkova, D Mottin - arXiv preprint arXiv:2302.08261, 2023 - arxiv.org
The integration of Artificial Intelligence (AI) into the field of drug discovery has been a
growing area of interdisciplinary scientific research. However, conventional AI models are …

Modern machine‐learning for binding affinity estimation of protein–ligand complexes: Progress, opportunities, and challenges

T Harren, T Gutermuth, C Grebner… - Wiley …, 2024 - Wiley Online Library
Abstract Structure‐based drug design is a widely applied approach in the discovery of new
lead compounds for known therapeutic targets. In most structure‐based drug design …

Maximally expressive GNNs for outerplanar graphs

F Bause, F Jogl, P Indri, T Drucks, D Penz… - … 2023 Workshop: New …, 2023 - openreview.net
We propose a linear time graph transformation that enables the Weisfeiler-Leman (WL) test
and message passing graph neural networks (MPNNs) to be maximally expressive on …

Hitvisc: high-throughput virtual screening as a service

N Nikitina, E Ivashko - International Conference on Parallel Computing …, 2023 - Springer
High-performance and high-throughput computing play an important role in drug
development and, in particular, in solving the computationally intensive problem of virtual …