Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model
- Autores
- Alberton, Kese Pontes Freitas; Alberton, André Luís; Di Maggio, Jimena Andrea; Estrada, Vanina Gisela; Díaz, María Soledad; Resende Secchi, Argimiro
- Año de publicación
- 2015
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- This work proposes a procedure for simultaneous parameters identifiability and estimation in metabolic networks in order to overcome difficulties associated with lack of experimental data and large number of parameters, a common scenario in themodeling of such systems. As case study, the complex real problem of parameters identifiability of the Escherichia coli K-12 W3110 dynamic model was investigated, composed by 18 differential ordinary equations and 35 kinetic rates, containing 125 parameters. With the procedure, model fit was improved formost of the measured metabolites, achieving 58 parameters estimated, including 5 unknown initial conditions.The results indicate that simultaneous parameters identifiability and estimation approach in metabolic networks is appealing, since model fit to the most of measured metabolites was possible even when important measures of intracellular metabolites and good initial estimates of parameters are not available.
Fil: Alberton, Kese Pontes Freitas. Universidade Federal do Rio de Janeiro; Brasil
Fil: Alberton, André Luís. Universidade Do Estado de Rio Do Janeiro; Brasil
Fil: Di Maggio, Jimena Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; Argentina
Fil: Estrada, Vanina Gisela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; Argentina
Fil: Díaz, María Soledad. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; Argentina
Fil: Resende Secchi, Argimiro. Universidade Federal do Rio de Janeiro; Brasil - Materia
-
PARAMETERS IDENTIFIABILITY
COMPLEX DYNAMIC MODELS
SCARCE EXPERIMENTAL DATA
METABOLIC NETWORKS
ESCHERICHIA COLI - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- https://creativecommons.org/licenses/by/2.5/ar/
- Repositorio
- Institución
- Consejo Nacional de Investigaciones Científicas y Técnicas
- OAI Identificador
- oai:ri.conicet.gov.ar:11336/24451
Ver los metadatos del registro completo
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Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network ModelAlberton, Kese Pontes FreitasAlberton, André LuísDi Maggio, Jimena AndreaEstrada, Vanina GiselaDíaz, María SoledadResende Secchi, ArgimiroPARAMETERS IDENTIFIABILITYCOMPLEX DYNAMIC MODELSSCARCE EXPERIMENTAL DATAMETABOLIC NETWORKSESCHERICHIA COLIhttps://purl.org/becyt/ford/2.4https://purl.org/becyt/ford/2This work proposes a procedure for simultaneous parameters identifiability and estimation in metabolic networks in order to overcome difficulties associated with lack of experimental data and large number of parameters, a common scenario in themodeling of such systems. As case study, the complex real problem of parameters identifiability of the Escherichia coli K-12 W3110 dynamic model was investigated, composed by 18 differential ordinary equations and 35 kinetic rates, containing 125 parameters. With the procedure, model fit was improved formost of the measured metabolites, achieving 58 parameters estimated, including 5 unknown initial conditions.The results indicate that simultaneous parameters identifiability and estimation approach in metabolic networks is appealing, since model fit to the most of measured metabolites was possible even when important measures of intracellular metabolites and good initial estimates of parameters are not available.Fil: Alberton, Kese Pontes Freitas. Universidade Federal do Rio de Janeiro; BrasilFil: Alberton, André Luís. Universidade Do Estado de Rio Do Janeiro; BrasilFil: Di Maggio, Jimena Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; ArgentinaFil: Estrada, Vanina Gisela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; ArgentinaFil: Díaz, María Soledad. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; ArgentinaFil: Resende Secchi, Argimiro. Universidade Federal do Rio de Janeiro; BrasilHindawi Publishing Corporation2015-02info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/24451Alberton, Kese Pontes Freitas; Alberton, André Luís; Di Maggio, Jimena Andrea; Estrada, Vanina Gisela; Díaz, María Soledad; et al.; Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model; Hindawi Publishing Corporation; Biomed Research International; 2015; 2-2015; 1-21; 4547652314-61332314-6141CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1155/2015/454765info:eu-repo/semantics/altIdentifier/url/https://www.hindawi.com/journals/bmri/2015/454765/info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T09:34:22Zoai:ri.conicet.gov.ar:11336/24451instacron: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:34982025-09-29 09:34:22.681CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse |
dc.title.none.fl_str_mv |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
title |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
spellingShingle |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model Alberton, Kese Pontes Freitas PARAMETERS IDENTIFIABILITY COMPLEX DYNAMIC MODELS SCARCE EXPERIMENTAL DATA METABOLIC NETWORKS ESCHERICHIA COLI |
title_short |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
title_full |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
title_fullStr |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
title_full_unstemmed |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
title_sort |
Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model |
dc.creator.none.fl_str_mv |
Alberton, Kese Pontes Freitas Alberton, André Luís Di Maggio, Jimena Andrea Estrada, Vanina Gisela Díaz, María Soledad Resende Secchi, Argimiro |
author |
Alberton, Kese Pontes Freitas |
author_facet |
Alberton, Kese Pontes Freitas Alberton, André Luís Di Maggio, Jimena Andrea Estrada, Vanina Gisela Díaz, María Soledad Resende Secchi, Argimiro |
author_role |
author |
author2 |
Alberton, André Luís Di Maggio, Jimena Andrea Estrada, Vanina Gisela Díaz, María Soledad Resende Secchi, Argimiro |
author2_role |
author author author author author |
dc.subject.none.fl_str_mv |
PARAMETERS IDENTIFIABILITY COMPLEX DYNAMIC MODELS SCARCE EXPERIMENTAL DATA METABOLIC NETWORKS ESCHERICHIA COLI |
topic |
PARAMETERS IDENTIFIABILITY COMPLEX DYNAMIC MODELS SCARCE EXPERIMENTAL DATA METABOLIC NETWORKS ESCHERICHIA COLI |
purl_subject.fl_str_mv |
https://purl.org/becyt/ford/2.4 https://purl.org/becyt/ford/2 |
dc.description.none.fl_txt_mv |
This work proposes a procedure for simultaneous parameters identifiability and estimation in metabolic networks in order to overcome difficulties associated with lack of experimental data and large number of parameters, a common scenario in themodeling of such systems. As case study, the complex real problem of parameters identifiability of the Escherichia coli K-12 W3110 dynamic model was investigated, composed by 18 differential ordinary equations and 35 kinetic rates, containing 125 parameters. With the procedure, model fit was improved formost of the measured metabolites, achieving 58 parameters estimated, including 5 unknown initial conditions.The results indicate that simultaneous parameters identifiability and estimation approach in metabolic networks is appealing, since model fit to the most of measured metabolites was possible even when important measures of intracellular metabolites and good initial estimates of parameters are not available. Fil: Alberton, Kese Pontes Freitas. Universidade Federal do Rio de Janeiro; Brasil Fil: Alberton, André Luís. Universidade Do Estado de Rio Do Janeiro; Brasil Fil: Di Maggio, Jimena Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; Argentina Fil: Estrada, Vanina Gisela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; Argentina Fil: Díaz, María Soledad. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Planta Piloto de Ingeniería Química. Universidad Nacional del Sur. Planta Piloto de Ingeniería Química; Argentina Fil: Resende Secchi, Argimiro. Universidade Federal do Rio de Janeiro; Brasil |
description |
This work proposes a procedure for simultaneous parameters identifiability and estimation in metabolic networks in order to overcome difficulties associated with lack of experimental data and large number of parameters, a common scenario in themodeling of such systems. As case study, the complex real problem of parameters identifiability of the Escherichia coli K-12 W3110 dynamic model was investigated, composed by 18 differential ordinary equations and 35 kinetic rates, containing 125 parameters. With the procedure, model fit was improved formost of the measured metabolites, achieving 58 parameters estimated, including 5 unknown initial conditions.The results indicate that simultaneous parameters identifiability and estimation approach in metabolic networks is appealing, since model fit to the most of measured metabolites was possible even when important measures of intracellular metabolites and good initial estimates of parameters are not available. |
publishDate |
2015 |
dc.date.none.fl_str_mv |
2015-02 |
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/11336/24451 Alberton, Kese Pontes Freitas; Alberton, André Luís; Di Maggio, Jimena Andrea; Estrada, Vanina Gisela; Díaz, María Soledad; et al.; Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model; Hindawi Publishing Corporation; Biomed Research International; 2015; 2-2015; 1-21; 454765 2314-6133 2314-6141 CONICET Digital CONICET |
url |
http://hdl.handle.net/11336/24451 |
identifier_str_mv |
Alberton, Kese Pontes Freitas; Alberton, André Luís; Di Maggio, Jimena Andrea; Estrada, Vanina Gisela; Díaz, María Soledad; et al.; Simultaneous Parameters Identifiability and Estimation of an E. coli Metabolic Network Model; Hindawi Publishing Corporation; Biomed Research International; 2015; 2-2015; 1-21; 454765 2314-6133 2314-6141 CONICET Digital CONICET |
dc.language.none.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
info:eu-repo/semantics/altIdentifier/doi/10.1155/2015/454765 info:eu-repo/semantics/altIdentifier/url/https://www.hindawi.com/journals/bmri/2015/454765/ |
dc.rights.none.fl_str_mv |
info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/2.5/ar/ |
eu_rights_str_mv |
openAccess |
rights_invalid_str_mv |
https://creativecommons.org/licenses/by/2.5/ar/ |
dc.format.none.fl_str_mv |
application/pdf application/pdf application/pdf application/pdf application/pdf |
dc.publisher.none.fl_str_mv |
Hindawi Publishing Corporation |
publisher.none.fl_str_mv |
Hindawi Publishing Corporation |
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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1844613063224852480 |
score |
13.070432 |