Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response

A mathematical model of the human immunodeficiency virus Type 1 (HIV-1) life cycle in CD4 T cells was constructed and calibrated. It describes the activation of the intracellular Type I interferon (IFN-I) response and the IFN-induced suppression of viral replication. The model includes viral replica...

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Autores: Sazonov, Igor, Grebennikov, Dmitry, Savinkov, Rostislav, Soboleva, Arina, Pavlishin, Kirill, Meyerhans, Andreas, Bocharov, Gennady A.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2023
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:10230/57002
Acceso en línea:http://hdl.handle.net/10230/57002
http://dx.doi.org/10.3390/v15020296
Access Level:acceso abierto
Palabra clave:HIV life cycle
Markov chain Monte Carlo method
Type I interferon (IFN-I)
Mathematical model
Sensitivity analysis
Stochastic processes
Viral dynamics
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spelling Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN responseSazonov, IgorGrebennikov, DmitrySavinkov, RostislavSoboleva, ArinaPavlishin, KirillMeyerhans, AndreasBocharov, Gennady A.HIV life cycleMarkov chain Monte Carlo methodType I interferon (IFN-I)Mathematical modelSensitivity analysisStochastic processesViral dynamicsA mathematical model of the human immunodeficiency virus Type 1 (HIV-1) life cycle in CD4 T cells was constructed and calibrated. It describes the activation of the intracellular Type I interferon (IFN-I) response and the IFN-induced suppression of viral replication. The model includes viral replication inhibition by interferon-induced antiviral factors and their inactivation by the viral proteins Vpu and Vif. Both deterministic and stochastic model formulations are presented. The stochastic model was used to predict efficiency of IFN-I-induced suppression of viral replication in different initial conditions for autocrine and paracrine effects. The probability of virion excretion for various MOIs and various amounts of IFN-I was evaluated and the statistical properties of the heterogeneity of HIV-1 and IFN-I production characterised.This research was funded by the Russian Science Foundation (Grant Number 18-11-00171) and partly by the Russian Foundation for Basic Research according to the research project number 20-01-00352. A.M. is also supported by the Spanish Ministry of Science and Innovation Grant No. PID2019-106323RB-I00 AEI//10.13039/501100011033 and “Unidad de Excelencia María de Maeztu” funded by the AEI (CEX2018-000792-M). G.B., D.G. and R.S. were partly supported by the Moscow Center for Fundamental and Applied Mathematics (agreement with the Ministry of Education and Science of the Russian Federation No. 075-15-2022-286).MDPI202320232023info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/pdfhttp://hdl.handle.net/10230/57002http://dx.doi.org/10.3390/v15020296reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésViruses. 2023 Jan 20;15(2):296info:eu-repo/grantAgreement/ES/2PE/PID2019-106323RB-I00© 2023 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).http://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:10230/570022026-05-29T05:05:01Z
dc.title.none.fl_str_mv Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
title Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
spellingShingle Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
Sazonov, Igor
HIV life cycle
Markov chain Monte Carlo method
Type I interferon (IFN-I)
Mathematical model
Sensitivity analysis
Stochastic processes
Viral dynamics
title_short Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
title_full Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
title_fullStr Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
title_full_unstemmed Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
title_sort Stochastic modelling of HIV-1 replication in a CD4 T cell with an IFN response
dc.creator.none.fl_str_mv Sazonov, Igor
Grebennikov, Dmitry
Savinkov, Rostislav
Soboleva, Arina
Pavlishin, Kirill
Meyerhans, Andreas
Bocharov, Gennady A.
author Sazonov, Igor
author_facet Sazonov, Igor
Grebennikov, Dmitry
Savinkov, Rostislav
Soboleva, Arina
Pavlishin, Kirill
Meyerhans, Andreas
Bocharov, Gennady A.
author_role author
author2 Grebennikov, Dmitry
Savinkov, Rostislav
Soboleva, Arina
Pavlishin, Kirill
Meyerhans, Andreas
Bocharov, Gennady A.
author2_role author
author
author
author
author
author
dc.subject.none.fl_str_mv HIV life cycle
Markov chain Monte Carlo method
Type I interferon (IFN-I)
Mathematical model
Sensitivity analysis
Stochastic processes
Viral dynamics
topic HIV life cycle
Markov chain Monte Carlo method
Type I interferon (IFN-I)
Mathematical model
Sensitivity analysis
Stochastic processes
Viral dynamics
description A mathematical model of the human immunodeficiency virus Type 1 (HIV-1) life cycle in CD4 T cells was constructed and calibrated. It describes the activation of the intracellular Type I interferon (IFN-I) response and the IFN-induced suppression of viral replication. The model includes viral replication inhibition by interferon-induced antiviral factors and their inactivation by the viral proteins Vpu and Vif. Both deterministic and stochastic model formulations are presented. The stochastic model was used to predict efficiency of IFN-I-induced suppression of viral replication in different initial conditions for autocrine and paracrine effects. The probability of virion excretion for various MOIs and various amounts of IFN-I was evaluated and the statistical properties of the heterogeneity of HIV-1 and IFN-I production characterised.
publishDate 2023
dc.date.none.fl_str_mv 2023
2023
2023
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10230/57002
http://dx.doi.org/10.3390/v15020296
url http://hdl.handle.net/10230/57002
http://dx.doi.org/10.3390/v15020296
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Viruses. 2023 Jan 20;15(2):296
info:eu-repo/grantAgreement/ES/2PE/PID2019-106323RB-I00
dc.rights.none.fl_str_mv http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
dc.source.none.fl_str_mv reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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