Network models in the study of metabolism

The systematic study of the genetic fingerprint (genomics) and the biochemistry (metabolites) that goes with a specific cellular process requires the characterization of all the small molecules that form the profile of metabolites and the associated genes. The metabolome represents the collection of...

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Autores principales:	Rodríguez,Arsenio, Infante,Diogenes
Lenguaje:	English
Publicado:	Pontificia Universidad Católica de Valparaíso 2009
Materias:	graph theory metabolic networks metabolomic
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582009000400011
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spelling	oai:scielo:S0717-345820090004000112010-04-19Network models in the study of metabolismRodríguez,ArsenioInfante,Diogenes graph theory metabolic networks metabolomic The systematic study of the genetic fingerprint (genomics) and the biochemistry (metabolites) that goes with a specific cellular process requires the characterization of all the small molecules that form the profile of metabolites and the associated genes. The metabolome represents the collection of all the metabolites during certain process in an organism. The transcriptome represents the gene expression profile, all the messengers RNA in a defined condition. Then to understand the whole process, the studies of metabolites must be accompanied with studies of the gene expression, hence the metabolome must be accompanied by the transcriptome, so we can identify genes and metabolites whose synthesis is induced by a specific process, an infection or stress. Studies of metabolomics generate an enormous amount of data, then they need mathematical and computational tools to establish the correlations between the biochemical and genetic data, and to build up networks that represent the complex metabolic interactions that occur in each case, using tools like Graph and Networks Theory to elucidate the emergent properties inherent to the complex interactions of the metabolic maps. This paper describes the major mathematical tools that can be used for these studies, with emphasis on a semi-qualitative proposal known as the kinetic structural model.info:eu-repo/semantics/openAccessPontificia Universidad Católica de ValparaísoElectronic Journal of Biotechnology v.12 n.4 20092009-10-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582009000400011en10.4067/S0717-34582009000400011
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	graph theory metabolic networks metabolomic
spellingShingle	graph theory metabolic networks metabolomic Rodríguez,Arsenio Infante,Diogenes Network models in the study of metabolism
description	The systematic study of the genetic fingerprint (genomics) and the biochemistry (metabolites) that goes with a specific cellular process requires the characterization of all the small molecules that form the profile of metabolites and the associated genes. The metabolome represents the collection of all the metabolites during certain process in an organism. The transcriptome represents the gene expression profile, all the messengers RNA in a defined condition. Then to understand the whole process, the studies of metabolites must be accompanied with studies of the gene expression, hence the metabolome must be accompanied by the transcriptome, so we can identify genes and metabolites whose synthesis is induced by a specific process, an infection or stress. Studies of metabolomics generate an enormous amount of data, then they need mathematical and computational tools to establish the correlations between the biochemical and genetic data, and to build up networks that represent the complex metabolic interactions that occur in each case, using tools like Graph and Networks Theory to elucidate the emergent properties inherent to the complex interactions of the metabolic maps. This paper describes the major mathematical tools that can be used for these studies, with emphasis on a semi-qualitative proposal known as the kinetic structural model.
author	Rodríguez,Arsenio Infante,Diogenes
author_facet	Rodríguez,Arsenio Infante,Diogenes
author_sort	Rodríguez,Arsenio
title	Network models in the study of metabolism
title_short	Network models in the study of metabolism
title_full	Network models in the study of metabolism
title_fullStr	Network models in the study of metabolism
title_full_unstemmed	Network models in the study of metabolism
title_sort	network models in the study of metabolism
publisher	Pontificia Universidad Católica de Valparaíso
publishDate	2009
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582009000400011
work_keys_str_mv	AT rodriguezarsenio networkmodelsinthestudyofmetabolism AT infantediogenes networkmodelsinthestudyofmetabolism
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Network models in the study of metabolism

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