4.7 Review

De Novo Peptide and Protein Design Using Generative Adversarial Networks: An Update

Journal

JOURNAL OF CHEMICAL INFORMATION AND MODELING
Volume 62, Issue 4, Pages 761-774

Publisher

AMER CHEMICAL SOC
DOI: 10.1021/acs.jcim.1c01361

Keywords

artificial intelligence; computer-aided drug design and discovery; deep artificial neural networks; deep learning; de novo peptide design; de novo protein design; generative adversarial networks; generative chemistry; generative methods; machine learning

Funding

  1. National Health Research Institutes, Taiwan [NHRI-EX110-10816NC, NHRI-EX111-11133NI]
  2. Ministry of Science and Technology in Taiwan [109-2314-B-039-001, 109-2314-B-039-039-MY3, MOST 110-2622-B039-001]
  3. China Medical University, Taiwan [CMU110-IP-01]
  4. Kaohsiung Chang Gung Memorial Hospital, Taiwan [CMRPG8K1161, CMRPG8K1461]

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This article reviews the latest developments in de novo peptide and protein design using generative adversarial network (GAN) algorithms in the interdisciplinary fields of generative chemistry, machine learning, deep learning, and computer-aided drug design and discovery. It also discusses the challenges and emerging problems for future research.
Nowadays, machine learning and deep learning approaches are widely utilized for generative chemistry and computer-aided drug design and discovery such as de novo peptide and protein design, where target-specific peptide-based/ protein-based therapeutics have been suggested to cause fewer adverse effects than the traditional small-molecule drugs. In light of current advancements in deep learning techniques, generative adversarial network (GAN) algorithms are being leveraged to a wide variety of applications in the process of generative chemistry and computer-aided drug design and discovery. In this review, we focus on the up-to-date developments for de novo peptide and protein design research using GAN algorithms in the interdiscipli- nary fields of generative chemistry, machine learning, deep learning, and computer-aided drug design and discovery. First, we present various studies that investigate GAN algorithms to fulfill the task of de novo peptide and protein design in the drug development pipeline. In addition, we summarize the drawbacks with respect to the previous studies in de novo peptide and protein design using GAN algorithms. Finally, we depict a discussion of open challenges and emerging problems for future research.

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