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Modeling the E. coli cell: The need for computing, cooperation, and consortia

Wanner, Barry L. and Finney, Andrew and Hucka, Michael (2005) Modeling the E. coli cell: The need for computing, cooperation, and consortia. In: Systems Biology: Definitions and Perspectives. Topics in Current Genetics. No.13. Springer Berlin Heidelberg , pp. 163-189. ISBN 978-3-540-22968-1. https://resolver.caltech.edu/CaltechAUTHORS:20130107-172005097

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Abstract

Escherichia coli K-12 is an ideal test bed for pushing forward the limits of our ability to understand cellular systems through computational modeling. A complete understanding will require arrays of mathematical models, a wealth of data from measurements of various life processes, and readily accessible databases that can be interrogated for testing our understanding. Accomplishing this will require improved approaches for mathematical modeling, unprecedented standardization for experimentation and data collection, completeness of data sets, and improved methods of accessing and linking information. Solving the whole cell problem, even for a simple E. coli model cell, will require the concerted efforts of many scientists with different expertise. In this chapter, we review advances in (i) computing for modeling cells, (ii) creating a common language for representing computational models (the Systems Biology Markup Language), and (iii) developing the International E. coli Alliance, which has been created to tackle the whole cell problem.


Item Type:Book Section
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1007/b138743DOIArticle
http://link.springer.com/chapter/10.1007%2Fb138743PublisherArticle
ORCID:
AuthorORCID
Hucka, Michael0000-0001-9105-5960
Additional Information:© 2005 Springer-Verlag Berlin Heidelberg. Published online: 25 May 2005. Authors are supported by the National Institutes of Health GM62662 (B.L.W.) and GM70923 (A.F. and M.H.).
Funders:
Funding AgencyGrant Number
NIHGM62662
NIHGM70923
Series Name:Topics in Current Genetics
Issue or Number:13
Record Number:CaltechAUTHORS:20130107-172005097
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20130107-172005097
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:36219
Collection:CaltechAUTHORS
Deposited By: Linda Taddeo
Deposited On:08 Jan 2013 15:41
Last Modified:03 Oct 2019 04:36

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