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PMID: 19116616 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Review

Reconstruction of biochemical networks in microorganisms.

Nature reviews. Microbiology ·Vol. 7 ·No. 2 ·2009-02-00 ·Pages 129-43

Feist AM, Herrgård MJ, Thiele I, Reed JL, Palsson BØ

Abstract

Systems analysis of metabolic and growth functions in microbial organisms is rapidly developing and maturing. Such studies are enabled by reconstruction, at the genomic scale, of the biochemical reaction networks that underlie cellular processes. The network reconstruction process is organism specific and is based on an annotated genome sequence, high-throughput network-wide data sets and bibliomic data on the detailed properties of individual network components. Here we describe the process that is currently used to achieve comprehensive network reconstructions and discuss how these reconstructions are curated and validated. This review should aid the growing number of researchers who are carrying out reconstructions for particular target organisms.

MeSH Terms
Bacteria/genetics,metabolism Gene Expression Regulation, Bacterial/physiology Genome, Bacterial Metabolomics
Authors & Affiliations
5 authors, click to expand affiliations / ORCID
Feist Adam M
Department of Bioengineering, University of California, San Diego, La Jolla, California 92093, USA.
Herrgård Markus J
Thiele Ines
Reed Jennie L
Palsson Bernhard Ø
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Article Info
Journal
Nature reviews. Microbiology
Abbr.
Nat Rev Microbiol
ISSN
1740-1534
DOI
10.1038/nrmicro1949
Published
2009-02-00
Epub
2008-00-31
Pages
129-43
Language
English
Region
England
NLM ID
101190261
PMCID
PMC3119670
Subset
IM
Grants
NIGMS NIH HHS · R01 GM057089 · United States
NIGMS NIH HHS · R01 GM057089-12 · United States
NIGMS NIH HHS · R01 GM071808 · United States
NIGMS NIH HHS · R01 GM071808-04 · United States
External Links
PubMed source DOI: 10.1038/nrmicro1949 PMC Full Text View journal details
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