Deep Learning-Based Molecular Generation for Lung Cancer Therapeutics

Abstract

Background: The leading cause of cancer-related deaths globally is lung cancer, and the P2X7 receptor (P2X7R) is a promising therapeutic target due to its role in the disease progression. Methods: A deep learning-based molecular generation framework that integrates a fragment-based drug method with Relational Graph Convolutional Networks (RGCNs) and a Wasserstein Generative Adversarial Network (WGAN) was employed. Known P2X7R targeting drugs were fragmented to construct a fragment library, which was used to generate new candidate molecules. The generated molecules from the model were evaluated for chemical validity, novelty, Lipinski’s Rule of Five compliance, quantitative estimate of drug-likeness (QED), lipophilicity (LogP), similarity using the Tanimoto coefficient, and binding affinity through molecular docking. Results: The model generated 4498 chemically valid molecules, including 968 unique and 384 novel molecules. Approximately 97% satisfied standard drug-likeness criteria, with QED values predominantly above 0.6 and LogP values within acceptable pharmacokinetic ranges. The novel molecules demonstrated an improved docking score against P2X7R compared to the seed molecules. Conclusions: Despite training on 5000 SMILES due to limited computational resources, the model achieved high validity, strong molecular diversity, and drug-like physicochemical properties, demonstrating the feasibility of a scalable, target-specific AI pipeline for lung cancer drug discovery using fragment-based molecular generation, RGCN and WGAN. Nevertheless, the biological activity of the generated molecules remains experimentally unvalidated, and the findings are based solely on computational analyses.