Development of a generative adversarial neural network for identification of potential HIV-1 inhibitors by deep learning methods
https://doi.org/10.37661/1816-0301-2020-17-1-7-17
Abstract
A generative adversarial autoencoder for the rational design of potential HIV-1 entry inhibitors able to block the region of the viral envelope protein gp120 critical for the virus binding to cellular receptor CD4 was developed using deep learning methods. The research were carried out to create the architecture of the neural network, to form virtual compound library of potential anti-HIV-1 agents for training the neural network, to make molecular docking of all compounds from this library with gp120, to calculate the values of binding free energy, to generate molecular fingerprints for chemical compounds from the training dataset. The training the neural network was implemented followed by estimation of the learning outcomes and work of the autoencoder. The validation of the neural network on a wide range of compounds from the ZINC database was carried out. The use of the neural network in combination with virtual screening of chemical databases was shown to form a productive platform for identifying the basic structures promising for the design of novel antiviral drugs that inhibit the early stages of HIV infection.
About the Authors
G. I. Nikolaev
The United Institute of Informatics Problems of the National Academy of Sciences of Belarus
Belarus
Grigory I. Nikolaev, Researcher
Belarus
Grigory I. Nikolaev, Researcher
N. A. Shuldov
Belorussian State University
Belarus
Nikita A. Shuldov, Student, Faculty of Applied Mathematics and Computer Science
Belarus
Nikita A. Shuldov, Student, Faculty of Applied Mathematics and Computer Science
A. I. Anishenko,
Belorussian State University
Belarus
Arseny I. Anishenko, Student, Faculty of Applied Mathematics and Computer Science
Belarus
Arseny I. Anishenko, Student, Faculty of Applied Mathematics and Computer Science
A. V. Tuzikov
The United Institute of Informatics Problems of the National Academy of Sciences of Belarus
Belarus
Alexander V. Tuzikov, Corresponding Member, Dr. Sci. (Phys.-Math.), Professor, Director
Belarus
Alexander V. Tuzikov, Corresponding Member, Dr. Sci. (Phys.-Math.), Professor, Director
A. M. Andrianov
Institute of Bioorganic Chemistry of the National Academy of Sciences of Belarus
Belarus
Alexander M. Andrianov, Dr. Sci. (Chem.), Chief Researcher
Belarus
Alexander M. Andrianov, Dr. Sci. (Chem.), Chief Researcher
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Review
For citations:
Nikolaev G.I., Shuldov N.A., Anishenko, A.I., Tuzikov A.V., Andrianov A.M. Development of a generative adversarial neural network for identification of potential HIV-1 inhibitors by deep learning methods. Informatics. 2020;17(1):7-17. (In Russ.) https://doi.org/10.37661/1816-0301-2020-17-1-7-17
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