A Multi-Property Optimizing Generative Adversarial Network for de novo Antimicrobial Peptide Design

Liu, J.; Cui, T.; Wang, T.; Zeng, X.; Niu, Y.; Jiao, S.; Lu, D.; Wang, J.; Xiao, S.; Xie, D.; Wang, X.; Wang, Y.; Shang, X.; Wei, Z.; Peng, J.

doi:10.1101/2024.11.13.623386

bioRxiv · 10.1101/2024.11.13.623386

A Multi-Property Optimizing Generative Adversarial Network for de novo Antimicrobial Peptide Design

Liu, J.·Cui, T.·Wang, T.·Zeng, X.·Niu, Y.·Jiao, S.·Lu, D.·Wang, J.·Xiao, S.·Xie, D.·Wang, X.·Wang, Y.·Shang, X.·Wei, Z.·Peng, J.

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Abstract

Antimicrobial peptides (AMPs) play a crucial role in developing novel antiinfective drugs due to their broad-spectrum antimicrobial activity and lower likelihood of causing bacterial resistance. However, laboratory synthesis of AMPs is tedious and time-consuming. Existing computational methods have limited capability in optimizing multiple desired properties simultaneously. Here, we propose a Multi-Property Optimizing Generative Adversarial Network (MPOGAN), a feedback-loop framework that iteratively learns from data with multiple desired properties. This approach enables de novo design of AMPs with potent antimicrobial activity, reduced cytotoxicity, and diversity. Through extensive computational tests, MPOGAN exhibits superior performance in optimizing multiple desired properties of generated AMPs. Ten of the most promising candidates are chemically synthesized, with nine showing potent antimicrobial activity against three bacterial strains and low cytotoxicity against eukaryotic cells. MPOGAN offers a powerful computational approach for effective multi-property optimization of AMPs, thereby advancing the field of AI-aided drug discovery.

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Liu, J., Cui, T., Wang, T., Zeng, X., Niu, Y., Jiao, S., Lu, D., Wang, J., Xiao, S., Xie, D., Wang, X., Wang, Y., Shang, X., Wei, Z., Peng, J.. 2024-11-15. A Multi-Property Optimizing Generative Adversarial Network for de novo Antimicrobial Peptide Design. https://doi.org/10.1101/2024.11.13.623386

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