Dataset Information

Quek2014 - Metabolic flux analysis of HEK cell culture using Recon 2 (reduced version of Recon 2)

ABSTRACT: Quek2014 - Metabolic flux analysis of HEK cell culture using Recon 2 (reduced version of Recon 2) This model is described in the article: Reducing Recon 2 for steady-state flux analysis of HEK cell culture. Quek LE, Dietmair S, Hanscho M, Martínez VS, Borth N, Nielsen LK. J. Biotechnol. 2014 Aug; 184: 172-178 Abstract: A representative stoichiometric model is essential to perform metabolic flux analysis (MFA) using experimentally measured consumption (or production) rates as constraints. For Human Embryonic Kidney (HEK) cell culture, there is the opportunity to use an extremely well-curated and annotated human genome-scale model Recon 2 for MFA. Performing MFA using Recon 2 without any modification would have implied that cells have access to all functionality encoded by the genome, which is not realistic. The majority of intracellular fluxes are poorly determined as only extracellular exchange rates are measured. This is compounded by the fact that there is no suitable metabolic objective function to suppress non-specific fluxes. We devised a heuristic to systematically reduce Recon 2 to emphasize flux through core metabolic reactions. This implies that cells would engage these dominant metabolic pathways to grow, and any significant changes in gross metabolic phenotypes would have invoked changes in these pathways. The reduced metabolic model becomes a functionalized version of Recon 2 used for identifying significant metabolic changes in cells by flux analysis. This model is hosted on BioModels Database and identified by: MODEL1504080000. To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

SUBMITTER: Kieran Smallbone

PROVIDER: MODEL1504080000 | BioModels | 2015-04-15

REPOSITORIES: BioModels

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			Action	DRS
	MODEL1504080000?filename=MODEL1504080000-biopax2.owl	Owl
	MODEL1504080000?filename=MODEL1504080000-biopax3.owl	Owl
	MODEL1504080000?filename=MODEL1504080000.m	Other
	MODEL1504080000?filename=MODEL1504080000.png	Other
	MODEL1504080000?filename=MODEL1504080000.sci	Other

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Publications

Reducing Recon 2 for steady-state flux analysis of HEK cell culture.

Quek Lake-Ee LE Dietmair Stefanie S Hanscho Michael M Martínez Verónica S VS Borth Nicole N Nielsen Lars K LK

Journal of biotechnology 20140605

A representative stoichiometric model is essential to perform metabolic flux analysis (MFA) using experimentally measured consumption (or production) rates as constraints. For Human Embryonic Kidney (HEK) cell culture, there is the opportunity to use an extremely well-curated and annotated human genome-scale model Recon 2 for MFA. Performing MFA using Recon 2 without any modification would have implied that cells have access to all functionality encoded by the genome, which is not realistic. The ...[more]

PMID: 24907410

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