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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2021-01-01
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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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