These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

884 related articles for article (PubMed ID: 21886097)

  • 1. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0.
    Schellenberger J; Que R; Fleming RM; Thiele I; Orth JD; Feist AM; Zielinski DC; Bordbar A; Lewis NE; Rahmanian S; Kang J; Hyduke DR; Palsson BØ
    Nat Protoc; 2011 Aug; 6(9):1290-307. PubMed ID: 21886097
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox.
    Becker SA; Feist AM; Mo ML; Hannum G; Palsson BØ; Herrgard MJ
    Nat Protoc; 2007; 2(3):727-38. PubMed ID: 17406635
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0.
    Heirendt L; Arreckx S; Pfau T; Mendoza SN; Richelle A; Heinken A; Haraldsdóttir HS; Wachowiak J; Keating SM; Vlasov V; Magnusdóttir S; Ng CY; Preciat G; Žagare A; Chan SHJ; Aurich MK; Clancy CM; Modamio J; Sauls JT; Noronha A; Bordbar A; Cousins B; El Assal DC; Valcarcel LV; Apaolaza I; Ghaderi S; Ahookhosh M; Ben Guebila M; Kostromins A; Sompairac N; Le HM; Ma D; Sun Y; Wang L; Yurkovich JT; Oliveira MAP; Vuong PT; El Assal LP; Kuperstein I; Zinovyev A; Hinton HS; Bryant WA; Aragón Artacho FJ; Planes FJ; Stalidzans E; Maass A; Vempala S; Hucka M; Saunders MA; Maranas CD; Lewis NE; Sauter T; Palsson BØ; Thiele I; Fleming RMT
    Nat Protoc; 2019 Mar; 14(3):639-702. PubMed ID: 30787451
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Tn-Core: A Toolbox for Integrating Tn-seq Gene Essentiality Data and Constraint-Based Metabolic Modeling.
    diCenzo GC; Mengoni A; Fondi M
    ACS Synth Biol; 2019 Jan; 8(1):158-169. PubMed ID: 30525460
    [TBL] [Abstract][Full Text] [Related]  

  • 5. A Beginner's Guide to the COBRA Toolbox.
    Navid A
    Methods Mol Biol; 2022; 2349():339-365. PubMed ID: 34719002
    [TBL] [Abstract][Full Text] [Related]  

  • 6. COBRApy: COnstraints-Based Reconstruction and Analysis for Python.
    Ebrahim A; Lerman JA; Palsson BO; Hyduke DR
    BMC Syst Biol; 2013 Aug; 7():74. PubMed ID: 23927696
    [TBL] [Abstract][Full Text] [Related]  

  • 7. ORCA: a COBRA toolbox extension for model-driven discovery and analysis.
    Mao L; Verwoerd WS
    Bioinformatics; 2014 Feb; 30(4):584-5. PubMed ID: 24336807
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Automated generation of genome-scale metabolic draft reconstructions based on KEGG.
    Karlsen E; Schulz C; Almaas E
    BMC Bioinformatics; 2018 Dec; 19(1):467. PubMed ID: 30514205
    [TBL] [Abstract][Full Text] [Related]  

  • 9. FastMM: an efficient toolbox for personalized constraint-based metabolic modeling.
    Li GH; Dai S; Han F; Li W; Huang J; Xiao W
    BMC Bioinformatics; 2020 Feb; 21(1):67. PubMed ID: 32085724
    [TBL] [Abstract][Full Text] [Related]  

  • 10. RAVEN 2.0: A versatile toolbox for metabolic network reconstruction and a case study on Streptomyces coelicolor.
    Wang H; Marcišauskas S; Sánchez BJ; Domenzain I; Hermansson D; Agren R; Nielsen J; Kerkhoven EJ
    PLoS Comput Biol; 2018 Oct; 14(10):e1006541. PubMed ID: 30335785
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Grid-based computational methods for the design of constraint-based parsimonious chemical reaction networks to simulate metabolite production: GridProd.
    Tamura T
    BMC Bioinformatics; 2018 Sep; 19(1):325. PubMed ID: 30217144
    [TBL] [Abstract][Full Text] [Related]  

  • 12. CRA toolbox: software package for conditional robustness analysis of cancer systems biology models in MATLAB.
    Bianconi F; Antonini C; Tomassoni L; Valigi P
    BMC Bioinformatics; 2019 Jul; 20(1):385. PubMed ID: 31288758
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Curating COBRA Models of Microbial Metabolism.
    Navid A
    Methods Mol Biol; 2022; 2349():321-338. PubMed ID: 34719001
    [TBL] [Abstract][Full Text] [Related]  

  • 14. The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum.
    Agren R; Liu L; Shoaie S; Vongsangnak W; Nookaew I; Nielsen J
    PLoS Comput Biol; 2013; 9(3):e1002980. PubMed ID: 23555215
    [TBL] [Abstract][Full Text] [Related]  

  • 15. EFMviz: A COBRA Toolbox extension to visualize Elementary Flux Modes in Genome-Scale Metabolic Models.
    Sarathy C; Kutmon M; Lenz M; Adriaens ME; Evelo CT; Arts ICW
    Metabolites; 2020 Feb; 10(2):. PubMed ID: 32059585
    [TBL] [Abstract][Full Text] [Related]  

  • 16. The MONGOOSE Rational Arithmetic Toolbox.
    Le C; Chindelevitch L
    Methods Mol Biol; 2018; 1716():77-99. PubMed ID: 29222749
    [TBL] [Abstract][Full Text] [Related]  

  • 17. PFA toolbox: a MATLAB tool for Metabolic Flux Analysis.
    Morales Y; Bosque G; Vehí J; Picó J; Llaneras F
    BMC Syst Biol; 2016 Jul; 10(1):46. PubMed ID: 27401090
    [TBL] [Abstract][Full Text] [Related]  

  • 18. MOST: a software environment for constraint-based metabolic modeling and strain design.
    Kelley JJ; Lane A; Li X; Mutthoju B; Maor S; Egen D; Lun DS
    Bioinformatics; 2015 Feb; 31(4):610-1. PubMed ID: 25677126
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Next-generation genome-scale models for metabolic engineering.
    King ZA; Lloyd CJ; Feist AM; Palsson BO
    Curr Opin Biotechnol; 2015 Dec; 35():23-9. PubMed ID: 25575024
    [TBL] [Abstract][Full Text] [Related]  

  • 20. von Bertalanffy 1.0: a COBRA toolbox extension to thermodynamically constrain metabolic models.
    Fleming RM; Thiele I
    Bioinformatics; 2011 Jan; 27(1):142-3. PubMed ID: 21115436
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 45.