Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Flux balance analysis: interrogating genome-scale metabolic networks.

Literature DB >> 19399432

Flux balance analysis: interrogating genome-scale metabolic networks.

Matthew A Oberhardt¹, Arvind K Chavali, Jason A Papin.

Abstract

Flux balance analysis (FBA) is a computational method to analyze reconstructions of biochemical networks. FBA requires the formulation of a biochemical network in a precise mathematical framework called a stoichiometric matrix. An objective function is defined (e.g., growth rate) toward which the system is assumed to be optimized. In this chapter, we present the methodology, theory, and common pitfalls of the application of FBA.

Mesh：

Year: 2009 PMID： 19399432 DOI： 10.1007/978-1-59745-525-1_3

Source DB: PubMed Journal: Methods Mol Biol ISSN： 1064-3745

Keyword Cloud
Cited

24 in total

1. Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology.

Authors: Peter D Karp; Suzanne M Paley; Markus Krummenacker; Mario Latendresse; Joseph M Dale; Thomas J Lee; Pallavi Kaipa; Fred Gilham; Aaron Spaulding; Liviu Popescu; Tomer Altman; Ian Paulsen; Ingrid M Keseler; Ron Caspi
Journal: Brief Bioinform Date: 2009-12-02 Impact factor: 11.622

10. Characterizing the relationship between steady state and response using analytical expressions for the steady states of mass action models.

Authors: Paul Michael Loriaux; Glenn Tesler; Alexander Hoffmann
Journal: PLoS Comput Biol Date: 2013-02-28 Impact factor: 4.475

Flux balance analysis: interrogating genome-scale metabolic networks.

1. Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology.

2. Whole-genome metabolic network reconstruction and constraint-based modeling.

3. Environments that induce synthetic microbial ecosystems.

4. Linking genome-scale metabolic modeling and genome annotation.

5. Metabolic network analysis of Pseudomonas aeruginosa during chronic cystic fibrosis lung infection.

6. Flux-sum analysis: a metabolite-centric approach for understanding the metabolic network.

7. Antimalarial drug targets in Plasmodium falciparum predicted by stage-specific metabolic network analysis.

8. Elucidating rice cell metabolism under flooding and drought stresses using flux-based modeling and analysis.

9. Functional prediction of environmental variables using metabolic networks.

10. Characterizing the relationship between steady state and response using analytical expressions for the steady states of mass action models.