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Similar articles for PubMed (Select 23194026)

1.

Integration of time-resolved transcriptomics data with flux-based methods reveals stress-induced metabolic adaptation in Escherichia coli.

Töpfer N, Jozefczuk S, Nikoloski Z.

BMC Syst Biol. 2012 Nov 30;6:148. doi: 10.1186/1752-0509-6-148.

2.

Stability of metabolic correlations under changing environmental conditions in Escherichia coli--a systems approach.

Szymanski J, Jozefczuk S, Nikoloski Z, Selbig J, Nikiforova V, Catchpole G, Willmitzer L.

PLoS One. 2009 Oct 15;4(10):e7441. doi: 10.1371/journal.pone.0007441.

3.

Adaptive evolution of bacterial metabolic networks by horizontal gene transfer.

Pál C, Papp B, Lercher MJ.

Nat Genet. 2005 Dec;37(12):1372-5. Epub 2005 Nov 20.

PMID:
16311593
4.

Can the whole be less than the sum of its parts? Pathway analysis in genome-scale metabolic networks using elementary flux patterns.

Kaleta C, de Figueiredo LF, Schuster S.

Genome Res. 2009 Oct;19(10):1872-83. doi: 10.1101/gr.090639.108. Epub 2009 Jun 18.

5.

Identification of functional differences in metabolic networks using comparative genomics and constraint-based models.

Hamilton JJ, Reed JL.

PLoS One. 2012;7(4):e34670. doi: 10.1371/journal.pone.0034670. Epub 2012 Apr 16.

6.

A systematic investigation of Escherichia coli central carbon metabolism in response to superoxide stress.

Rui B, Shen T, Zhou H, Liu J, Chen J, Pan X, Liu H, Wu J, Zheng H, Shi Y.

BMC Syst Biol. 2010 Sep 1;4:122. doi: 10.1186/1752-0509-4-122.

8.

A hybrid model of anaerobic E. coli GJT001: combination of elementary flux modes and cybernetic variables.

Kim JI, Varner JD, Ramkrishna D.

Biotechnol Prog. 2008 Sep-Oct;24(5):993-1006. doi: 10.1002/btpr.73.

PMID:
19194908
9.

Metabolomic and transcriptomic stress response of Escherichia coli.

Jozefczuk S, Klie S, Catchpole G, Szymanski J, Cuadros-Inostroza A, Steinhauser D, Selbig J, Willmitzer L.

Mol Syst Biol. 2010 May 11;6:364. doi: 10.1038/msb.2010.18.

10.

Genome-level transcription data of Yersinia pestis analyzed with a new metabolic constraint-based approach.

Navid A, Almaas E.

BMC Syst Biol. 2012 Dec 6;6:150. doi: 10.1186/1752-0509-6-150.

11.

Estimating the size of the solution space of metabolic networks.

Braunstein A, Mulet R, Pagnani A.

BMC Bioinformatics. 2008 May 19;9:240. doi: 10.1186/1471-2105-9-240.

12.

Systems metabolic engineering: the creation of microbial cell factories by rational metabolic design and evolution.

Furusawa C, Horinouchi T, Hirasawa T, Shimizu H.

Adv Biochem Eng Biotechnol. 2013;131:1-23. doi: 10.1007/10_2012_137. Review.

PMID:
22736112
13.

Random sampling of elementary flux modes in large-scale metabolic networks.

Machado D, Soons Z, Patil KR, Ferreira EC, Rocha I.

Bioinformatics. 2012 Sep 15;28(18):i515-i521. doi: 10.1093/bioinformatics/bts401.

14.

Flux coupling analysis of metabolic networks is sensitive to missing reactions.

Marashi SA, Bockmayr A.

Biosystems. 2011 Jan;103(1):57-66. doi: 10.1016/j.biosystems.2010.09.011. Epub 2010 Oct 1.

PMID:
20888889
15.

Structural analysis of metabolic networks based on flux centrality.

Koschützki D, Junker BH, Schwender J, Schreiber F.

J Theor Biol. 2010 Aug 7;265(3):261-9. doi: 10.1016/j.jtbi.2010.05.009. Epub 2010 May 18.

PMID:
20471988
16.

A metabolite-centric view on flux distributions in genome-scale metabolic models.

Riemer SA, Rex R, Schomburg D.

BMC Syst Biol. 2013 Apr 12;7:33. doi: 10.1186/1752-0509-7-33.

17.

Environmental versatility promotes modularity in genome-scale metabolic networks.

Samal A, Wagner A, Martin OC.

BMC Syst Biol. 2011 Aug 24;5:135. doi: 10.1186/1752-0509-5-135.

18.

Prediction of metabolic fluxes by incorporating genomic context and flux-converging pattern analyses.

Park JM, Kim TY, Lee SY.

Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14931-6. doi: 10.1073/pnas.1003740107. Epub 2010 Aug 2.

19.

Analysis of complex metabolic behavior through pathway decomposition.

Ip K, Colijn C, Lun DS.

BMC Syst Biol. 2011 Jun 3;5:91. doi: 10.1186/1752-0509-5-91.

20.

Metabolic flux ratio analysis and multi-objective optimization revealed a globally conserved and coordinated metabolic response of E. coli to paraquat-induced oxidative stress.

Shen T, Rui B, Zhou H, Zhang X, Yi Y, Wen H, Zheng H, Wu J, Shi Y.

Mol Biosyst. 2013 Jan 27;9(1):121-32. doi: 10.1039/c2mb25285f. Epub 2012 Nov 6.

PMID:
23128557
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