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AI4AVP: an antiviral peptides predictor in deep learning approach with generative adversarial network data augmentation.

作者信息

Lin Tzu-Tang, Sun Yih-Yun, Wang Ching-Tien, Cheng Wen-Chih, Lu I-Hsuan, Lin Chung-Yen, Chen Shu-Hwa

机构信息

Institute of Information Science, Academia Sinica, Taipei 115, Taiwan.

Graduate Institute of Biomedical Electronics and Bioinformatics, College of Electrical Engineering and Computer Science, National Taiwan University, Taipei 106, Taiwan.

出版信息

Bioinform Adv. 2022 Oct 26;2(1):vbac080. doi: 10.1093/bioadv/vbac080. eCollection 2022.


DOI:10.1093/bioadv/vbac080
PMID:36699402
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9710571/
Abstract

MOTIVATION: Antiviral peptides (AVPs) from various sources suggest the possibility of developing peptide drugs for treating viral diseases. Because of the increasing number of identified AVPs and the advances in deep learning theory, it is reasonable to experiment with peptide drug design using methods. RESULTS: We collected the most up-to-date AVPs and used deep learning to construct a sequence-based binary classifier. A generative adversarial network was employed to augment the number of AVPs in the positive training dataset and enable our deep learning convolutional neural network (CNN) model to learn from the negative dataset. Our classifier outperformed other state-of-the-art classifiers when using the testing dataset. We have placed the trained classifiers on a user-friendly web server, AI4AVP, for the research community. AVAILABILITY AND IMPLEMENTATION: AI4AVP is freely accessible at http://axp.iis.sinica.edu.tw/AI4AVP/; codes and datasets for the peptide GAN and the AVP predictor CNN are available at https://github.com/lsbnb/amp_gan and https://github.com/LinTzuTang/AI4AVP_predictor. SUPPLEMENTARY INFORMATION: Supplementary data are available at online.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7948/9710571/99933a0f97dd/vbac080f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7948/9710571/0230de880f35/vbac080f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7948/9710571/99933a0f97dd/vbac080f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7948/9710571/0230de880f35/vbac080f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7948/9710571/99933a0f97dd/vbac080f2.jpg

相似文献

[1]
AI4AVP: an antiviral peptides predictor in deep learning approach with generative adversarial network data augmentation.

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[2]
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[3]
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[4]
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[5]
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[6]
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[7]
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引用本文的文献

[1]
A hybrid framework of generative deep learning for antiviral peptide discovery.

Sci Rep. 2025-7-15

[2]
Deep Generative Models for the Discovery of Antiviral Peptides Targeting Dengue Virus: A Systematic Review.

Int J Mol Sci. 2025-6-26

[3]
A fish-specific antimicrobial peptide Piscidin2 inactivates MSRV and confers protection in largemouth bass.

Front Immunol. 2025-6-23

[4]
A review of machine learning methods for imbalanced data challenges in chemistry.

Chem Sci. 2025-4-22

[5]
Deep learning in the discovery of antiviral peptides and peptidomimetics: databases and prediction tools.

Mol Divers. 2025-3-28

[6]
AVPpred-BWR: antiviral peptides prediction via biological words representation.

Bioinformatics. 2025-3-29

[7]
Exploring the repository of de novo-designed bifunctional antimicrobial peptides through deep learning.

Elife. 2025-3-13

[8]
VITALdb: to select the best viroinformatics tools for a desired virus or application.

Brief Bioinform. 2025-3-4

[9]
Unlocking Antimicrobial Peptides: In Silico Proteolysis and Artificial Intelligence-Driven Discovery from Cnidarian Omics.

Molecules. 2025-1-25

[10]
Prediction of viral oncoproteins through the combination of generative adversarial networks and machine learning techniques.

Sci Rep. 2024-11-7

本文引用的文献

[1]
AI4AMP: an Antimicrobial Peptide Predictor Using Physicochemical Property-Based Encoding Method and Deep Learning.

mSystems. 2021-12-21

[2]
ENNAVIA is a novel method which employs neural networks for antiviral and anti-coronavirus activity prediction for therapeutic peptides.

Brief Bioinform. 2021-11-5

[3]
Simultaneous deep generative modeling and clustering of single cell genomic data.

Nat Mach Intell. 2021-6

[4]
UniProt: the universal protein knowledgebase in 2021.

Nucleic Acids Res. 2021-1-8

[5]
Better understanding and prediction of antiviral peptides through primary and secondary structure feature importance.

Sci Rep. 2020-11-6

[6]
DBAASP v3: database of antimicrobial/cytotoxic activity and structure of peptides as a resource for development of new therapeutics.

Nucleic Acids Res. 2021-1-8

[7]
The Potential of Antiviral Peptides as COVID-19 Therapeutics.

Front Pharmacol. 2020-9-15

[8]
A Generative Neural Network for Maximizing Fitness and Diversity of Synthetic DNA and Protein Sequences.

Cell Syst. 2020-7-22

[9]
Antiviral Peptides: Identification and Validation.

Int J Pept Res Ther. 2021

[10]
Synthetic promoter design in Escherichia coli based on a deep generative network.

Nucleic Acids Res. 2020-7-9

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