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Low degree metabolites explain essential reactions and enhance modularity in biological networks.
Samal A, Singh S, Giri V, Krishna S, Raghuram N, Jain S.
BMC Bioinformatics. 2006 Mar 8;7:118.PMID: 16524470 [PubMed - indexed for MEDLINE]Related articlesFree article
Decomposition of metabolic network into functional modules based on the global connectivity structure of reaction graph.
Ma HW, Zhao XM, Yuan YJ, Zeng AP.
Bioinformatics. 2004 Aug 12;20(12):1870-6. Epub 2004 Mar 22.PMID: 15037506 [PubMed - indexed for MEDLINE]Related articlesFree article
Discovering functional gene expression patterns in the metabolic network of Escherichia coli with wavelets transforms.
König R, Schramm G, Oswald M, Seitz H, Sager S, Zapatka M, Reinelt G, Eils R.
BMC Bioinformatics. 2006 Mar 8;7:119.PMID: 16524469 [PubMed - indexed for MEDLINE]Related articlesFree article
A structural approach for finding functional modules from large biological networks.
Mete M, Tang F, Xu X, Yuruk N.
BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S19.PMID: 18793464 [PubMed - indexed for MEDLINE]Related articlesFree article
Preferential attachment in the evolution of metabolic networks.
Light S, Kraulis P, Elofsson A.
BMC Genomics. 2005 Nov 10;6:159.PMID: 16281983 [PubMed - indexed for MEDLINE]Related articlesFree article
Phenotype prediction in regulated metabolic networks.
Kaleta C, Centler F, di Fenizio PS, Dittrich P.
BMC Syst Biol. 2008 Apr 25;2:37.PMID: 18439260 [PubMed - indexed for MEDLINE]Related articlesFree article
Optimization based automated curation of metabolic reconstructions.
Satish Kumar V, Dasika MS, Maranas CD.
BMC Bioinformatics. 2007 Jun 20;8:212.PMID: 17584497 [PubMed - indexed for MEDLINE]Related articlesFree article
Three factors underlying incorrect in silico predictions of essential metabolic genes.
Becker SA, Palsson BO.
BMC Syst Biol. 2008 Feb 4;2:14.PMID: 18248675 [PubMed - indexed for MEDLINE]Related articlesFree article
Structural comparison of metabolic networks in selected single cell organisms.
Zhu D, Qin ZS.
BMC Bioinformatics. 2005 Jan 14;6:8.PMID: 15649332 [PubMed - indexed for MEDLINE]Related articlesFree article
The degree of redundancy in metabolic genes is linked to mode of metabolism.
Mahadevan R, Lovley DR.
Biophys J. 2008 Feb 15;94(4):1216-20. Epub 2007 Nov 2.PMID: 17981891 [PubMed - indexed for MEDLINE]Related articlesFree article
Metabolite coupling in genome-scale metabolic networks.
Becker SA, Price ND, Palsson BØ.
BMC Bioinformatics. 2006 Mar 6;7:111.PMID: 16519800 [PubMed - indexed for MEDLINE]Related articlesFree article
Reconstruction of microbial transcriptional regulatory networks.
Herrgård MJ, Covert MW, Palsson BØ.
Curr Opin Biotechnol. 2004 Feb;15(1):70-7. Review.PMID: 15102470 [PubMed - indexed for MEDLINE]Related articles
Correlation between structure and temperature in prokaryotic metabolic networks.
Takemoto K, Nacher JC, Akutsu T.
BMC Bioinformatics. 2007 Aug 21;8:303.PMID: 17711568 [PubMed - indexed for MEDLINE]Related articlesFree article
Hierarchical structure and modules in the Escherichia coli transcriptional regulatory network revealed by a new top-down approach.
Ma HW, Buer J, Zeng AP.
BMC Bioinformatics. 2004 Dec 16;5:199.PMID: 15603590 [PubMed - indexed for MEDLINE]Related articlesFree article
Discovering functional interaction patterns in protein-protein interaction networks.
Turanalp ME, Can T.
BMC Bioinformatics. 2008 Jun 11;9:276.PMID: 18547430 [PubMed - indexed for MEDLINE]Related articlesFree article
In search of the biological significance of modular structures in protein networks.
Wang Z, Zhang J.
PLoS Comput Biol. 2007 Jun;3(6):e107. Epub 2007 Apr 30. Erratum in: PLoS Comput Biol. 2007 Jul;3(7):e146. PMID: 17542644 [PubMed - indexed for MEDLINE]Related articlesFree article
Including metabolite concentrations into flux balance analysis: thermodynamic realizability as a constraint on flux distributions in metabolic networks.
Hoppe A, Hoffmann S, Holzhütter HG.
BMC Syst Biol. 2007 Jun 1;1:23.PMID: 17543097 [PubMed - indexed for MEDLINE]Related articlesFree article
Observing local and global properties of metabolic pathways: 'load points' and 'choke points' in the metabolic networks.
Rahman SA, Schomburg D.
Bioinformatics. 2006 Jul 15;22(14):1767-74. Epub 2006 May 8.PMID: 16682421 [PubMed - indexed for MEDLINE]Related articlesFree article
Accelerating the reconstruction of genome-scale metabolic networks.
Notebaart RA, van Enckevort FH, Francke C, Siezen RJ, Teusink B.
BMC Bioinformatics. 2006 Jun 13;7:296.PMID: 16772023 [PubMed - indexed for MEDLINE]Related articlesFree article
Development and implementation of an algorithm for detection of protein complexes in large interaction networks.
Altaf-Ul-Amin M, Shinbo Y, Mihara K, Kurokawa K, Kanaya S.
BMC Bioinformatics. 2006 Apr 14;7:207.PMID: 16613608 [PubMed - indexed for MEDLINE]Related articlesFree article
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