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Results: 1 to 20 of 160

1.

Reconciliation of genome-scale metabolic reconstructions for comparative systems analysis.

Oberhardt MA, Puchałka J, Martins dos Santos VA, Papin JA.

PLoS Comput Biol. 2011 Mar;7(3):e1001116. doi: 10.1371/journal.pcbi.1001116. Epub 2011 Mar 31.

PMID:
21483480
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory.

Nogales J, Palsson BØ, Thiele I.

BMC Syst Biol. 2008 Sep 16;2:79. doi: 10.1186/1752-0509-2-79.

PMID:
18793442
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

MultiMetEval: comparative and multi-objective analysis of genome-scale metabolic models.

Zakrzewski P, Medema MH, Gevorgyan A, Kierzek AM, Breitling R, Takano E.

PLoS One. 2012;7(12):e51511. doi: 10.1371/journal.pone.0051511. Epub 2012 Dec 14.

PMID:
23272111
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology.

Puchałka J, Oberhardt MA, Godinho M, Bielecka A, Regenhardt D, Timmis KN, Papin JA, Martins dos Santos VA.

PLoS Comput Biol. 2008 Oct;4(10):e1000210. doi: 10.1371/journal.pcbi.1000210. Epub 2008 Oct 31.

PMID:
18974823
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Comparative analysis of metabolic networks provides insight into the evolution of plant pathogenic and nonpathogenic lifestyles in Pseudomonas.

Mithani A, Hein J, Preston GM.

Mol Biol Evol. 2011 Jan;28(1):483-99. doi: 10.1093/molbev/msq213. Epub 2010 Aug 13.

PMID:
20709733
[PubMed - indexed for MEDLINE]
Free Article
6.

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.

PMID:
22666308
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli.

McCloskey D, Palsson BØ, Feist AM.

Mol Syst Biol. 2013;9:661. doi: 10.1038/msb.2013.18. Review.

PMID:
23632383
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

MrBac: a web server for draft metabolic network reconstructions for bacteria.

Liao YC, Chen JC, Tsai MH, Tang YH, Chen FC, Hsiung CA.

Bioeng Bugs. 2011 Sep-Oct;2(5):284-7. doi: 10.4161/bbug.2.5.16113. Epub 2011 Sep 1.

PMID:
22008641
[PubMed - indexed for MEDLINE]
Free Article
9.

A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1.

Sigurdsson MI, Jamshidi N, Steingrimsson E, Thiele I, Palsson BØ.

BMC Syst Biol. 2010 Oct 19;4:140. doi: 10.1186/1752-0509-4-140.

PMID:
20959003
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Integration of metabolic databases for the reconstruction of genome-scale metabolic networks.

Radrich K, Tsuruoka Y, Dobson P, Gevorgyan A, Swainston N, Baart G, Schwartz JM.

BMC Syst Biol. 2010 Aug 16;4:114. doi: 10.1186/1752-0509-4-114.

PMID:
20712863
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Applications of genome-scale metabolic reconstructions.

Oberhardt MA, Palsson BØ, Papin JA.

Mol Syst Biol. 2009;5:320. doi: 10.1038/msb.2009.77. Epub 2009 Nov 3. Review.

PMID:
19888215
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

MetaMerge: scaling up genome-scale metabolic reconstructions with application to Mycobacterium tuberculosis.

Chindelevitch L, Stanley S, Hung D, Regev A, Berger B.

Genome Biol. 2012 Jan 31;13(1):r6. doi: 10.1186/gb-2012-13-1-r6.

PMID:
22292986
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1.

Oberhardt MA, Puchałka J, Fryer KE, Martins dos Santos VA, Papin JA.

J Bacteriol. 2008 Apr;190(8):2790-803. doi: 10.1128/JB.01583-07. Epub 2008 Jan 11.

PMID:
18192387
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Elucidation and structural analysis of conserved pools for genome-scale metabolic reconstructions.

Nikolaev EV, Burgard AP, Maranas CD.

Biophys J. 2005 Jan;88(1):37-49. Epub 2004 Oct 15.

PMID:
15489308
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information.

Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, Karp PD, Broadbelt LJ, Hatzimanikatis V, Palsson BØ.

Mol Syst Biol. 2007;3:121. Epub 2007 Jun 26.

PMID:
17593909
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Genome-scale models of bacterial metabolism: reconstruction and applications.

Durot M, Bourguignon PY, Schachter V.

FEMS Microbiol Rev. 2009 Jan;33(1):164-90. doi: 10.1111/j.1574-6976.2008.00146.x. Epub 2008 Dec 3. Review.

PMID:
19067749
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

iAK692: a genome-scale metabolic model of Spirulina platensis C1.

Klanchui A, Khannapho C, Phodee A, Cheevadhanarak S, Meechai A.

BMC Syst Biol. 2012 Jun 15;6:71. doi: 10.1186/1752-0509-6-71.

PMID:
22703714
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Genome-scale network analysis of imprinted human metabolic genes.

Sigurdsson MI, Jamshidi N, Jonsson JJ, Palsson BO.

Epigenetics. 2009 Jan;4(1):43-6. Epub 2009 Jan 31. Review.

PMID:
19218833
[PubMed - indexed for MEDLINE]
Free Article
19.

Network-based scoring system for genome-scale metabolic reconstructions.

Serrano MÁ, Sagués F.

BMC Syst Biol. 2011 May 19;5:76. doi: 10.1186/1752-0509-5-76.

PMID:
21595941
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Reconstruction of biochemical networks in microorganisms.

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

Nat Rev Microbiol. 2009 Feb;7(2):129-43. doi: 10.1038/nrmicro1949. Epub 2008 Dec 31. Review.

PMID:
19116616
[PubMed - indexed for MEDLINE]
Free PMC Article

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