Literature DB >> 12700248

Thirteen years of building constraint-based in silico models of Escherichia coli.

Jennifer L Reed1, Bernhard Ø Palsson.   

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Year:  2003        PMID： 12700248      PMCID： PMC154396          DOI： 10.1128/JB.185.9.2692-2699.2003

Source DB:  PubMed          Journal:  J Bacteriol        ISSN： 0021-9193            Impact factor:   3.490


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  54 in total

1.  A MILP-based flux alternative generation and NMR experimental design strategy for metabolic engineering.

Authors:  C Phalakornkule; S Lee; T Zhu; R Koepsel; M M Ataai; I E Grossmann; M M Domach
Journal:  Metab Eng       Date:  2001-04       Impact factor: 9.783

2.  Regulation of gene expression in flux balance models of metabolism.

Authors:  M W Covert; C H Schilling; B Palsson
Journal:  J Theor Biol       Date:  2001-11-07       Impact factor: 2.691

Review 3.  Proteomics--post-genomic cartography to understand gene function.

Authors:  S Naaby-Hansen; M D Waterfield; R Cramer
Journal:  Trends Pharmacol Sci       Date:  2001-07       Impact factor: 14.819

4.  Metabolic network structure determines key aspects of functionality and regulation.

Authors:  Jörg Stelling; Steffen Klamt; Katja Bettenbrock; Stefan Schuster; Ernst Dieter Gilles
Journal:  Nature       Date:  2002-11-14       Impact factor: 49.962

5.  Energy balance for analysis of complex metabolic networks.

Authors:  Daniel A Beard; Shou-dan Liang; Hong Qian
Journal:  Biophys J       Date:  2002-07       Impact factor: 4.033

6.  The genome-scale metabolic extreme pathway structure in Haemophilus influenzae shows significant network redundancy.

Authors:  Jason A Papin; Nathan D Price; Jeremy S Edwards; Bernhard Ø Palsson B
Journal:  J Theor Biol       Date:  2002-03-07       Impact factor: 2.691

7.  Combinatorial complexity of pathway analysis in metabolic networks.

Authors:  Steffen Klamt; Jörg Stelling
Journal:  Mol Biol Rep       Date:  2002       Impact factor: 2.316

8.  Branch point control by the phosphorylation state of isocitrate dehydrogenase. A quantitative examination of fluxes during a regulatory transition.

Authors:  K Walsh; D E Koshland
Journal:  J Biol Chem       Date:  1985-07-15       Impact factor: 5.157

9.  In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data.

Authors:  J S Edwards; R U Ibarra; B O Palsson
Journal:  Nat Biotechnol       Date:  2001-02       Impact factor: 54.908
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  91 in total

Review 1.  It is all about metabolic fluxes.

Authors:  Jens Nielsen
Journal:  J Bacteriol       Date:  2003-12       Impact factor: 3.490

2.  Flux coupling analysis of genome-scale metabolic network reconstructions.

Authors:  Anthony P Burgard; Evgeni V Nikolaev; Christophe H Schilling; Costas D Maranas
Journal:  Genome Res       Date:  2004-01-12       Impact factor: 9.043

3.  The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis.

Authors:  Jason A Papin; Bernhard O Palsson
Journal:  Biophys J       Date:  2004-07       Impact factor: 4.033

4.  Growth, metabolic partitioning, and the size of microorganisms.

Authors:  Christopher P Kempes; Stephanie Dutkiewicz; Michael J Follows
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-27       Impact factor: 11.205

5.  Regulatory on/off minimization of metabolic flux changes after genetic perturbations.

Authors:  Tomer Shlomi; Omer Berkman; Eytan Ruppin
Journal:  Proc Natl Acad Sci U S A       Date:  2005-05-16       Impact factor: 11.205

Review 6.  Metabolic engineering in the -omics era: elucidating and modulating regulatory networks.

Authors:  Goutham N Vemuri; Aristos A Aristidou
Journal:  Microbiol Mol Biol Rev       Date:  2005-06       Impact factor: 11.056

7.  Thermodynamically feasible kinetic models of reaction networks.

Authors:  Michael Ederer; Ernst Dieter Gilles
Journal:  Biophys J       Date:  2007-01-05       Impact factor: 4.033

8.  Network inference, analysis, and modeling in systems biology.

Authors:  Réka Albert
Journal:  Plant Cell       Date:  2007-11-30       Impact factor: 11.277

9.  Scaling theory of transport in complex biological networks.

Authors:  Lazaros K Gallos; Chaoming Song; Shlomo Havlin; Hernán A Makse
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-30       Impact factor: 11.205

10.  Gut microbiota dysbiosis is associated with malnutrition and reduced plasma amino acid levels: Lessons from genome-scale metabolic modeling.

Authors:  Manish Kumar; Boyang Ji; Parizad Babaei; Promi Das; Dimitra Lappa; Girija Ramakrishnan; Todd E Fox; Rashidul Haque; William A Petri; Fredrik Bäckhed; Jens Nielsen
Journal:  Metab Eng       Date:  2018-07-31       Impact factor: 9.783
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