AI4AMP: An antimicrobial peptide predictor using physicochemical property-based encoding method and deep learning

Tzu Tang Lin, Li Yen Yang, I. Hsuan Lu, Wen Chih Cheng, Zhe Ren Hsu, Shu Hwa Chen, Chung Yen Lin

Research output: Contribution to journalArticlepeer-review

1 Citation (Scopus)

Abstract

Antimicrobial peptides (AMPs) are innate immune components that have recently stimulated considerable interest among drug developers due to their potential as antibiotic substitutes. AMPs are notable for their fundamental properties of microbial membrane structural interference and the biomedical applications of killing or suppressing microbes. New AMP candidates must be developed to oppose antibiotic resistance. However, the discovery of novel AMPs through wet-lab screening approaches is inefficient and expensive. The prediction model investigated in this study may help accelerate this process. We collected both the up-to-date AMP data set and unbiased negatives based on which the protein-encoding methods and deep learning model for AMPs were investigated. The external testing results indicated that our trained model achieved 90% precision, outperforming current methods. We implemented our model on a user-friendly web server, AI4AMP, to accurately predict the antimicrobial potential of a given protein sequence and perform proteome screening.

Original languageEnglish
Article numbere00299-21
JournalmSystems
Volume6
Issue number6
DOIs
Publication statusPublished - Dec 2021

Keywords

  • Antimicrobial peptide
  • Deep learning
  • Protein-encoding method
  • Real-world data
  • Web service

ASJC Scopus subject areas

  • Microbiology
  • Ecology, Evolution, Behavior and Systematics
  • Biochemistry
  • Physiology
  • Modelling and Simulation
  • Molecular Biology
  • Genetics
  • Computer Science Applications

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