In April 2016 Manchester eScholar was replaced by the University of Manchester’s new Research Information Management System, Pure. In the autumn the University’s research outputs will be available to search and browse via a new Research Portal. Until then the University’s full publication record can be accessed via a temporary portal and the old eScholar content is available to search and browse via this archive.

Large-Scale Metabolic Models: From Reconstruction to Differential Equations

Kieran Smallbone, Pedro Mendes

Industrial Biotechnology. 2013;9(4):179-184.

Access to files

Full-text and supplementary files are not available from Manchester eScholar. Full-text is available externally using the following links:

Full-text held externally

Abstract

Genome-scale kinetic models of metabolism are important for rational design of the metabolic engineering required for industrial biotechnology applications. They allow one to predict the alterations needed to optimize the flux or yield of the compounds of interest, while keeping the other functions of the host organism to a minimal, but essential, level. We define a pipeline for the generation of genome-scale kinetic models from reconstruction data. To build such a model, inputs of all concentrations, fluxes, rate laws, and kinetic parameters are required. However, we propose typical estimates for these numbers when experimental data are not available. While little data are required to produce the model, the pipeline ensures consistency with any known flux or concentration data, or any kinetic constants. We apply the method to create genome-scale models of Escherichia coli and Saccharomyces cerevisiae. We go on to show how these may be used to expand a detailed model of yeast glycolysis to the genome level.

Bibliographic metadata

Type of resource:
Content type:
Publication status:
Published
Publication type:
Publication form:
Published date:
Language:
eng
Journal title:
ISSN:
Publishers website:
http://online.liebertpub.com/doi/full/10.1089/ind.2013.0003
Volume:
9
Issue:
4
Start page:
179
End page:
184
Total:
5
Pagination:
179-184
Digital Object Identifier:
10.1089/ind.2013.0003
Funding awarded to University:
  • European Commission - GOV30
  • BBSRC - RESBBSRC
Funder(s) acknowledged in this article?:
Yes
Attached files Open Access licence:
Other
Attached files embargo period:
Immediate release
Attached files release date:
19th June, 2014
Access state:
Active

Institutional metadata

University researcher(s):

Record metadata

Manchester eScholar ID:
uk-ac-man-scw:227429
Created by:
Pedrosa Mendes, Pedro
Created:
19th June, 2014, 15:15:08
Last modified by:
Pedrosa Mendes, Pedro
Last modified:
19th June, 2014, 15:15:08

Can we help?

The library chat service will be available from 11am-3pm Monday to Friday (excluding Bank Holidays). You can also email your enquiry to us.