Role of cooperative binding on noise expression

Autores
Gutiérrez, Pablo S.; Monteoliva, Diana; Diambra, Luis Aníbal
Año de publicación
2009
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The origin of stochastic fluctuations in gene expression has received considerable attention recently. Fluctuations in gene expression are particularly pronounced in cellular systems because of the small copy number of species undergoing transitions between discrete chemical states and the small size of biological compartments. In this paper, we propose a stochastic model for gene expression regulation including several binding sites, considering elementary reactions only. The model is used to investigate the role of cooperativity on the intrinsic fluctuations of gene expression by means of master-equation formalism. We found that the Hill coefficient and the level of noise increase as the interaction energy between activators increases. Additionally, we show that the model allows one to distinguish between two cooperative binding mechanisms.
Centro Regional de Estudios Genómicos
Instituto de Física La Plata
Materia
Física
Binding site
Physics
Biophysics
Stochastic modelling
Formalism (philosophy of mathematics)
Gene expression
Regulation of gene expression
Cooperativity
Cooperative binding
Interaction energy
Nivel de accesibilidad
acceso abierto
Condiciones de uso
http://creativecommons.org/licenses/by-nc-sa/4.0/
Repositorio
SEDICI (UNLP)
Institución
Universidad Nacional de La Plata
OAI Identificador
oai:sedici.unlp.edu.ar:10915/125947
Acceder
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oai_identifier_str oai:sedici.unlp.edu.ar:10915/125947
network_acronym_str SEDICI
repository_id_str 1329
network_name_str SEDICI (UNLP)
spelling Role of cooperative binding on noise expressionGutiérrez, Pablo S.Monteoliva, DianaDiambra, Luis AníbalFísicaBinding sitePhysicsBiophysicsStochastic modellingFormalism (philosophy of mathematics)Gene expressionRegulation of gene expressionCooperativityCooperative bindingInteraction energyThe origin of stochastic fluctuations in gene expression has received considerable attention recently. Fluctuations in gene expression are particularly pronounced in cellular systems because of the small copy number of species undergoing transitions between discrete chemical states and the small size of biological compartments. In this paper, we propose a stochastic model for gene expression regulation including several binding sites, considering elementary reactions only. The model is used to investigate the role of cooperativity on the intrinsic fluctuations of gene expression by means of master-equation formalism. We found that the Hill coefficient and the level of noise increase as the interaction energy between activators increases. Additionally, we show that the model allows one to distinguish between two cooperative binding mechanisms.Centro Regional de Estudios GenómicosInstituto de Física La Plata2009-07-22info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionArticulohttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://sedici.unlp.edu.ar/handle/10915/125947enginfo:eu-repo/semantics/altIdentifier/issn/1539-3755info:eu-repo/semantics/altIdentifier/issn/1550-2376info:eu-repo/semantics/altIdentifier/doi/10.1103/physreve.80.011914info:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by-nc-sa/4.0/Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)reponame:SEDICI (UNLP)instname:Universidad Nacional de La Platainstacron:UNLP2025-10-22T17:11:12Zoai:sedici.unlp.edu.ar:10915/125947Institucionalhttp://sedici.unlp.edu.ar/Universidad públicaNo correspondehttp://sedici.unlp.edu.ar/oai/snrdalira@sedici.unlp.edu.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:13292025-10-22 17:11:12.34SEDICI (UNLP) - Universidad Nacional de La Platafalse
dc.title.none.fl_str_mv Role of cooperative binding on noise expression
title Role of cooperative binding on noise expression
spellingShingle Role of cooperative binding on noise expression
Gutiérrez, Pablo S.
Física
Binding site
Physics
Biophysics
Stochastic modelling
Formalism (philosophy of mathematics)
Gene expression
Regulation of gene expression
Cooperativity
Cooperative binding
Interaction energy
title_short Role of cooperative binding on noise expression
title_full Role of cooperative binding on noise expression
title_fullStr Role of cooperative binding on noise expression
title_full_unstemmed Role of cooperative binding on noise expression
title_sort Role of cooperative binding on noise expression
dc.creator.none.fl_str_mv Gutiérrez, Pablo S.
Monteoliva, Diana
Diambra, Luis Aníbal
author Gutiérrez, Pablo S.
author_facet Gutiérrez, Pablo S.
Monteoliva, Diana
Diambra, Luis Aníbal
author_role author
author2 Monteoliva, Diana
Diambra, Luis Aníbal
author2_role author
author
dc.subject.none.fl_str_mv Física
Binding site
Physics
Biophysics
Stochastic modelling
Formalism (philosophy of mathematics)
Gene expression
Regulation of gene expression
Cooperativity
Cooperative binding
Interaction energy
topic Física
Binding site
Physics
Biophysics
Stochastic modelling
Formalism (philosophy of mathematics)
Gene expression
Regulation of gene expression
Cooperativity
Cooperative binding
Interaction energy
dc.description.none.fl_txt_mv The origin of stochastic fluctuations in gene expression has received considerable attention recently. Fluctuations in gene expression are particularly pronounced in cellular systems because of the small copy number of species undergoing transitions between discrete chemical states and the small size of biological compartments. In this paper, we propose a stochastic model for gene expression regulation including several binding sites, considering elementary reactions only. The model is used to investigate the role of cooperativity on the intrinsic fluctuations of gene expression by means of master-equation formalism. We found that the Hill coefficient and the level of noise increase as the interaction energy between activators increases. Additionally, we show that the model allows one to distinguish between two cooperative binding mechanisms.
Centro Regional de Estudios Genómicos
Instituto de Física La Plata
description The origin of stochastic fluctuations in gene expression has received considerable attention recently. Fluctuations in gene expression are particularly pronounced in cellular systems because of the small copy number of species undergoing transitions between discrete chemical states and the small size of biological compartments. In this paper, we propose a stochastic model for gene expression regulation including several binding sites, considering elementary reactions only. The model is used to investigate the role of cooperativity on the intrinsic fluctuations of gene expression by means of master-equation formalism. We found that the Hill coefficient and the level of noise increase as the interaction energy between activators increases. Additionally, we show that the model allows one to distinguish between two cooperative binding mechanisms.
publishDate 2009
dc.date.none.fl_str_mv 2009-07-22
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
Articulo
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://sedici.unlp.edu.ar/handle/10915/125947
url http://sedici.unlp.edu.ar/handle/10915/125947
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/issn/1539-3755
info:eu-repo/semantics/altIdentifier/issn/1550-2376
info:eu-repo/semantics/altIdentifier/doi/10.1103/physreve.80.011914
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
http://creativecommons.org/licenses/by-nc-sa/4.0/
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
eu_rights_str_mv openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by-nc-sa/4.0/
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv reponame:SEDICI (UNLP)
instname:Universidad Nacional de La Plata
instacron:UNLP
reponame_str SEDICI (UNLP)
collection SEDICI (UNLP)
instname_str Universidad Nacional de La Plata
instacron_str UNLP
institution UNLP
repository.name.fl_str_mv SEDICI (UNLP) - Universidad Nacional de La Plata
repository.mail.fl_str_mv alira@sedici.unlp.edu.ar
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