Optimal design of dynamic experiments in the development of cybernetic models for bioreactors

Autores
Luna, Martín Francisco; Martínez, Ernesto Carlos
Año de publicación
2018
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Cybernetic models of bioreactors are appealing due to their capacity to account for regulatory mechanisms in cell metabolism by modeling the synthesis of enzymes and their activities. For a given objective of interest, experimental data used to fit the cybernetic model parameters should be maximally informative. To excite purposefully the most relevant metabolic pathways, a dynamic experiment is designed by accounting for the sensitivity of the chosen objective to time-varying operating conditions. In this work, the bioreactor feeding profile and sampling times are designed to maximize the information content. A Bayesian optimization approach is proposed to solve the resulting mathematical program. As a case study, biomass production is used as the objective to be maximized in fed-batch cultivation of Saccharomyces cerevisiae growing on glucose as a carbon source. Experimental results demonstrate that the proposed approach helps to iteratively improve a cybernetic model by designing experiments that maximize the information content.
Fil: Luna, Martín Francisco. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Desarrollo y Diseño. Universidad Tecnológica Nacional. Facultad Regional Santa Fe. Instituto de Desarrollo y Diseño; Argentina
Fil: Martínez, Ernesto Carlos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Desarrollo y Diseño. Universidad Tecnológica Nacional. Facultad Regional Santa Fe. Instituto de Desarrollo y Diseño; Argentina
Materia
BAYESIAN OPTIMIZATION
CYBERNETIC MODEL
DESIGN OF DYNAMIC EXPERIMENTS
GLOBAL SENSITIVITY ANALYSIS
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/87042
Acceder
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network_name_str CONICET Digital (CONICET)
spelling Optimal design of dynamic experiments in the development of cybernetic models for bioreactorsLuna, Martín FranciscoMartínez, Ernesto CarlosBAYESIAN OPTIMIZATIONCYBERNETIC MODELDESIGN OF DYNAMIC EXPERIMENTSGLOBAL SENSITIVITY ANALYSIShttps://purl.org/becyt/ford/2.4https://purl.org/becyt/ford/2Cybernetic models of bioreactors are appealing due to their capacity to account for regulatory mechanisms in cell metabolism by modeling the synthesis of enzymes and their activities. For a given objective of interest, experimental data used to fit the cybernetic model parameters should be maximally informative. To excite purposefully the most relevant metabolic pathways, a dynamic experiment is designed by accounting for the sensitivity of the chosen objective to time-varying operating conditions. In this work, the bioreactor feeding profile and sampling times are designed to maximize the information content. A Bayesian optimization approach is proposed to solve the resulting mathematical program. As a case study, biomass production is used as the objective to be maximized in fed-batch cultivation of Saccharomyces cerevisiae growing on glucose as a carbon source. Experimental results demonstrate that the proposed approach helps to iteratively improve a cybernetic model by designing experiments that maximize the information content.Fil: Luna, Martín Francisco. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Desarrollo y Diseño. Universidad Tecnológica Nacional. Facultad Regional Santa Fe. Instituto de Desarrollo y Diseño; ArgentinaFil: Martínez, Ernesto Carlos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Desarrollo y Diseño. Universidad Tecnológica Nacional. Facultad Regional Santa Fe. Instituto de Desarrollo y Diseño; ArgentinaInstitution of Chemical Engineers2018-08info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/87042Luna, Martín Francisco; Martínez, Ernesto Carlos; Optimal design of dynamic experiments in the development of cybernetic models for bioreactors; Institution of Chemical Engineers; Chemical Engineering Research & Design; 136; 8-2018; 334-3460263-8762CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S0263876218302752?via%3Dihubinfo:eu-repo/semantics/altIdentifier/doi/10.1016/j.cherd.2018.05.036info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-22T12:06:06Zoai:ri.conicet.gov.ar:11336/87042instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-10-22 12:06:06.343CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
title Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
spellingShingle Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
Luna, Martín Francisco
BAYESIAN OPTIMIZATION
CYBERNETIC MODEL
DESIGN OF DYNAMIC EXPERIMENTS
GLOBAL SENSITIVITY ANALYSIS
title_short Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
title_full Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
title_fullStr Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
title_full_unstemmed Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
title_sort Optimal design of dynamic experiments in the development of cybernetic models for bioreactors
dc.creator.none.fl_str_mv Luna, Martín Francisco
Martínez, Ernesto Carlos
author Luna, Martín Francisco
author_facet Luna, Martín Francisco
Martínez, Ernesto Carlos
author_role author
author2 Martínez, Ernesto Carlos
author2_role author
dc.subject.none.fl_str_mv BAYESIAN OPTIMIZATION
CYBERNETIC MODEL
DESIGN OF DYNAMIC EXPERIMENTS
GLOBAL SENSITIVITY ANALYSIS
topic BAYESIAN OPTIMIZATION
CYBERNETIC MODEL
DESIGN OF DYNAMIC EXPERIMENTS
GLOBAL SENSITIVITY ANALYSIS
purl_subject.fl_str_mv https://purl.org/becyt/ford/2.4
https://purl.org/becyt/ford/2
dc.description.none.fl_txt_mv Cybernetic models of bioreactors are appealing due to their capacity to account for regulatory mechanisms in cell metabolism by modeling the synthesis of enzymes and their activities. For a given objective of interest, experimental data used to fit the cybernetic model parameters should be maximally informative. To excite purposefully the most relevant metabolic pathways, a dynamic experiment is designed by accounting for the sensitivity of the chosen objective to time-varying operating conditions. In this work, the bioreactor feeding profile and sampling times are designed to maximize the information content. A Bayesian optimization approach is proposed to solve the resulting mathematical program. As a case study, biomass production is used as the objective to be maximized in fed-batch cultivation of Saccharomyces cerevisiae growing on glucose as a carbon source. Experimental results demonstrate that the proposed approach helps to iteratively improve a cybernetic model by designing experiments that maximize the information content.
Fil: Luna, Martín Francisco. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Desarrollo y Diseño. Universidad Tecnológica Nacional. Facultad Regional Santa Fe. Instituto de Desarrollo y Diseño; Argentina
Fil: Martínez, Ernesto Carlos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Desarrollo y Diseño. Universidad Tecnológica Nacional. Facultad Regional Santa Fe. Instituto de Desarrollo y Diseño; Argentina
description Cybernetic models of bioreactors are appealing due to their capacity to account for regulatory mechanisms in cell metabolism by modeling the synthesis of enzymes and their activities. For a given objective of interest, experimental data used to fit the cybernetic model parameters should be maximally informative. To excite purposefully the most relevant metabolic pathways, a dynamic experiment is designed by accounting for the sensitivity of the chosen objective to time-varying operating conditions. In this work, the bioreactor feeding profile and sampling times are designed to maximize the information content. A Bayesian optimization approach is proposed to solve the resulting mathematical program. As a case study, biomass production is used as the objective to be maximized in fed-batch cultivation of Saccharomyces cerevisiae growing on glucose as a carbon source. Experimental results demonstrate that the proposed approach helps to iteratively improve a cybernetic model by designing experiments that maximize the information content.
publishDate 2018
dc.date.none.fl_str_mv 2018-08
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/87042
Luna, Martín Francisco; Martínez, Ernesto Carlos; Optimal design of dynamic experiments in the development of cybernetic models for bioreactors; Institution of Chemical Engineers; Chemical Engineering Research & Design; 136; 8-2018; 334-346
0263-8762
CONICET Digital
CONICET
url http://hdl.handle.net/11336/87042
identifier_str_mv Luna, Martín Francisco; Martínez, Ernesto Carlos; Optimal design of dynamic experiments in the development of cybernetic models for bioreactors; Institution of Chemical Engineers; Chemical Engineering Research & Design; 136; 8-2018; 334-346
0263-8762
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S0263876218302752?via%3Dihub
info:eu-repo/semantics/altIdentifier/doi/10.1016/j.cherd.2018.05.036
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv Institution of Chemical Engineers
publisher.none.fl_str_mv Institution of Chemical Engineers
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 12.982451

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