Opportunities at the Interface of Network Science and Metabolic Modeling

Metabolism plays a central role in cell physiology because it provides the molecular machinery for growth. At the genome-scale, metabolism is made up of thousands of reactions interacting with one another. Untangling this complexity is key to understand how cells respond to genetic, environmental, o...

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Main Authors:	Varshit Dusad, Denise Thiel, Mauricio Barahona, Hector C. Keun, Diego A. Oyarzún
Format:	Article
Language:	English
Published:	Frontiers Media S.A. 2021-01-01
Series:	Frontiers in Bioengineering and Biotechnology
Subjects:	genome scale metabolic modeling network science systems biology flux balance analysis machine learning synthetic biology
Online Access:	https://www.frontiersin.org/articles/10.3389/fbioe.2020.591049/full

id	doaj-3dfb75c9bc08409389535b558404b4e1
record_format	Article
spelling	doaj-3dfb75c9bc08409389535b558404b4e12021-01-25T08:16:54ZengFrontiers Media S.A.Frontiers in Bioengineering and Biotechnology2296-41852021-01-01810.3389/fbioe.2020.591049591049Opportunities at the Interface of Network Science and Metabolic ModelingVarshit Dusad0Denise Thiel1Mauricio Barahona2Hector C. Keun3Hector C. Keun4Diego A. Oyarzún5Diego A. Oyarzún6Department of Life Sciences, Imperial College London, London, United KingdomDepartment of Mathematics, Imperial College London, London, United KingdomDepartment of Mathematics, Imperial College London, London, United KingdomDepartment of Surgery and Cancer, Imperial College London, London, United KingdomDepartment of Metabolism, Digestion and Reproduction, Imperial College London, London, United KingdomSchool of Biological Sciences, University of Edinburgh, Edinburgh, United KingdomSchool of Informatics, University of Edinburgh, Edinburgh, United KingdomMetabolism plays a central role in cell physiology because it provides the molecular machinery for growth. At the genome-scale, metabolism is made up of thousands of reactions interacting with one another. Untangling this complexity is key to understand how cells respond to genetic, environmental, or therapeutic perturbations. Here we discuss the roles of two complementary strategies for the analysis of genome-scale metabolic models: Flux Balance Analysis (FBA) and network science. While FBA estimates metabolic flux on the basis of an optimization principle, network approaches reveal emergent properties of the global metabolic connectivity. We highlight how the integration of both approaches promises to deliver insights on the structure and function of metabolic systems with wide-ranging implications in discovery science, precision medicine and industrial biotechnology.https://www.frontiersin.org/articles/10.3389/fbioe.2020.591049/fullgenome scale metabolic modelingnetwork sciencesystems biologyflux balance analysismachine learningsynthetic biology
collection	DOAJ
language	English
format	Article
sources	DOAJ
author	Varshit Dusad Denise Thiel Mauricio Barahona Hector C. Keun Hector C. Keun Diego A. Oyarzún Diego A. Oyarzún
spellingShingle	Varshit Dusad Denise Thiel Mauricio Barahona Hector C. Keun Hector C. Keun Diego A. Oyarzún Diego A. Oyarzún Opportunities at the Interface of Network Science and Metabolic Modeling Frontiers in Bioengineering and Biotechnology genome scale metabolic modeling network science systems biology flux balance analysis machine learning synthetic biology
author_facet	Varshit Dusad Denise Thiel Mauricio Barahona Hector C. Keun Hector C. Keun Diego A. Oyarzún Diego A. Oyarzún
author_sort	Varshit Dusad
title	Opportunities at the Interface of Network Science and Metabolic Modeling
title_short	Opportunities at the Interface of Network Science and Metabolic Modeling
title_full	Opportunities at the Interface of Network Science and Metabolic Modeling
title_fullStr	Opportunities at the Interface of Network Science and Metabolic Modeling
title_full_unstemmed	Opportunities at the Interface of Network Science and Metabolic Modeling
title_sort	opportunities at the interface of network science and metabolic modeling
publisher	Frontiers Media S.A.
series	Frontiers in Bioengineering and Biotechnology
issn	2296-4185
publishDate	2021-01-01
description	Metabolism plays a central role in cell physiology because it provides the molecular machinery for growth. At the genome-scale, metabolism is made up of thousands of reactions interacting with one another. Untangling this complexity is key to understand how cells respond to genetic, environmental, or therapeutic perturbations. Here we discuss the roles of two complementary strategies for the analysis of genome-scale metabolic models: Flux Balance Analysis (FBA) and network science. While FBA estimates metabolic flux on the basis of an optimization principle, network approaches reveal emergent properties of the global metabolic connectivity. We highlight how the integration of both approaches promises to deliver insights on the structure and function of metabolic systems with wide-ranging implications in discovery science, precision medicine and industrial biotechnology.
topic	genome scale metabolic modeling network science systems biology flux balance analysis machine learning synthetic biology
url	https://www.frontiersin.org/articles/10.3389/fbioe.2020.591049/full
work_keys_str_mv	AT varshitdusad opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling AT denisethiel opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling AT mauriciobarahona opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling AT hectorckeun opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling AT hectorckeun opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling AT diegoaoyarzun opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling AT diegoaoyarzun opportunitiesattheinterfaceofnetworkscienceandmetabolicmodeling
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Opportunities at the Interface of Network Science and Metabolic Modeling

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