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Journal Abstract Search

186 related items for PubMed ID: 26091045

  • 1. Avoiding the Enumeration of Infeasible Elementary Flux Modes by Including Transcriptional Regulatory Rules in the Enumeration Process Saves Computational Costs.
    Jungreuthmayer C, Ruckerbauer DE, Gerstl MP, Hanscho M, Zanghellini J.
    PLoS One; 2015; 10(6):e0129840. PubMed ID: 26091045
    [Abstract] [Full Text] [Related]

  • 2. regEfmtool: speeding up elementary flux mode calculation using transcriptional regulatory rules in the form of three-state logic.
    Jungreuthmayer C, Ruckerbauer DE, Zanghellini J.
    Biosystems; 2013 Jul; 113(1):37-9. PubMed ID: 23664840
    [Abstract] [Full Text] [Related]

  • 3. tEFMA: computing thermodynamically feasible elementary flux modes in metabolic networks.
    Gerstl MP, Jungreuthmayer C, Zanghellini J.
    Bioinformatics; 2015 Jul 01; 31(13):2232-4. PubMed ID: 25701571
    [Abstract] [Full Text] [Related]

  • 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 01; 19(10):1872-83. PubMed ID: 19541909
    [Abstract] [Full Text] [Related]

  • 5. Computing Elementary Flux Modes Involving a Set of Target Reactions.
    David L, Bockmayr A.
    IEEE/ACM Trans Comput Biol Bioinform; 2014 Oct 01; 11(6):1099-107. PubMed ID: 26357047
    [Abstract] [Full Text] [Related]

  • 6. Computation of elementary modes: a unifying framework and the new binary approach.
    Gagneur J, Klamt S.
    BMC Bioinformatics; 2004 Nov 04; 5():175. PubMed ID: 15527509
    [Abstract] [Full Text] [Related]

  • 7. Computing the shortest elementary flux modes in genome-scale metabolic networks.
    de Figueiredo LF, Podhorski A, Rubio A, Kaleta C, Beasley JE, Schuster S, Planes FJ.
    Bioinformatics; 2009 Dec 01; 25(23):3158-65. PubMed ID: 19793869
    [Abstract] [Full Text] [Related]

  • 8. Flux modules in metabolic networks.
    Müller AC, Bockmayr A.
    J Math Biol; 2014 Nov 01; 69(5):1151-79. PubMed ID: 24141488
    [Abstract] [Full Text] [Related]

  • 9. Complete enumeration of elementary flux modes through scalable demand-based subnetwork definition.
    Hunt KA, Folsom JP, Taffs RL, Carlson RP.
    Bioinformatics; 2014 Jun 01; 30(11):1569-78. PubMed ID: 24497502
    [Abstract] [Full Text] [Related]

  • 10. YANA - a software tool for analyzing flux modes, gene-expression and enzyme activities.
    Schwarz R, Musch P, von Kamp A, Engels B, Schirmer H, Schuster S, Dandekar T.
    BMC Bioinformatics; 2005 Jun 01; 6():135. PubMed ID: 15929789
    [Abstract] [Full Text] [Related]

  • 11. Advances in network-based metabolic pathway analysis and gene expression data integration.
    Rezola A, Pey J, Tobalina L, Rubio Á, Beasley JE, Planes FJ.
    Brief Bioinform; 2015 Mar 01; 16(2):265-79. PubMed ID: 24626528
    [Abstract] [Full Text] [Related]

  • 12. Finding elementary flux modes in metabolic networks based on flux balance analysis and flux coupling analysis: application to the analysis of Escherichia coli metabolism.
    Tabe-Bordbar S, Marashi SA.
    Biotechnol Lett; 2013 Dec 01; 35(12):2039-44. PubMed ID: 24078125
    [Abstract] [Full Text] [Related]

  • 13. Predicting novel pathways in genome-scale metabolic networks.
    Schuster S, de Figueiredo LF, Kaleta C.
    Biochem Soc Trans; 2010 Oct 01; 38(5):1202-5. PubMed ID: 20863284
    [Abstract] [Full Text] [Related]

  • 14. Elementary flux modes in a nutshell: properties, calculation and applications.
    Zanghellini J, Ruckerbauer DE, Hanscho M, Jungreuthmayer C.
    Biotechnol J; 2013 Sep 01; 8(9):1009-16. PubMed ID: 23788432
    [Abstract] [Full Text] [Related]

  • 15. Metabolomics integrated elementary flux mode analysis in large metabolic networks.
    Gerstl MP, Ruckerbauer DE, Mattanovich D, Jungreuthmayer C, Zanghellini J.
    Sci Rep; 2015 Mar 10; 5():8930. PubMed ID: 25754258
    [Abstract] [Full Text] [Related]

  • 16. Sequential computation of elementary modes and minimal cut sets in genome-scale metabolic networks using alternate integer linear programming.
    Song HS, Goldberg N, Mahajan A, Ramkrishna D.
    Bioinformatics; 2017 Aug 01; 33(15):2345-2353. PubMed ID: 28369193
    [Abstract] [Full Text] [Related]

  • 17. Accelerating flux balance calculations in genome-scale metabolic models by localizing the application of loopless constraints.
    Chan SHJ, Wang L, Dash S, Maranas CD.
    Bioinformatics; 2018 Dec 15; 34(24):4248-4255. PubMed ID: 29868725
    [Abstract] [Full Text] [Related]

  • 18. ACoM: A classification method for elementary flux modes based on motif finding.
    Pérès S, Vallée F, Beurton-Aimar M, Mazat JP.
    Biosystems; 2011 Mar 15; 103(3):410-9. PubMed ID: 21145369
    [Abstract] [Full Text] [Related]

  • 19. Software applications toward quantitative metabolic flux analysis and modeling.
    Dandekar T, Fieselmann A, Majeed S, Ahmed Z.
    Brief Bioinform; 2014 Jan 15; 15(1):91-107. PubMed ID: 23142828
    [Abstract] [Full Text] [Related]

  • 20. A depth-first search algorithm to compute elementary flux modes by linear programming.
    Quek LE, Nielsen LK.
    BMC Syst Biol; 2014 Jul 30; 8():94. PubMed ID: 25074068
    [Abstract] [Full Text] [Related]

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