Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 526

1.

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.

PMID:
17406635
2.

A genome-scale, constraint-based approach to systems biology of human metabolism.

Mo ML, Jamshidi N, Palsson BØ.

Mol Biosyst. 2007 Sep;3(9):598-603. Epub 2007 Jul 11.

PMID:
17700859
3.

Flux balance analysis of biological systems: applications and challenges.

Raman K, Chandra N.

Brief Bioinform. 2009 Jul;10(4):435-49. doi: 10.1093/bib/bbp011. Epub 2009 Mar 15.

PMID:
19287049
4.

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 4;6(9):1290-307. doi: 10.1038/nprot.2011.308.

5.

Genome-scale models of microbial cells: evaluating the consequences of constraints.

Price ND, Reed JL, Palsson BØ.

Nat Rev Microbiol. 2004 Nov;2(11):886-97. Review.

PMID:
15494745
6.

Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology.

Schmidt H, Jirstrand M.

Bioinformatics. 2006 Feb 15;22(4):514-5. Epub 2005 Nov 29.

PMID:
16317076
7.

The markup is the model: reasoning about systems biology models in the Semantic Web era.

Kell DB, Mendes P.

J Theor Biol. 2008 Jun 7;252(3):538-43. Epub 2007 Dec 3. Review.

PMID:
18054049
8.

Dynamic simulation of regulatory networks using SQUAD.

Di Cara A, Garg A, De Micheli G, Xenarios I, Mendoza L.

BMC Bioinformatics. 2007 Nov 26;8:462.

9.

DOTcvpSB, a software toolbox for dynamic optimization in systems biology.

Hirmajer T, Balsa-Canto E, Banga JR.

BMC Bioinformatics. 2009 Jun 29;10:199. doi: 10.1186/1471-2105-10-199.

10.

From genomes to in silico cells via metabolic networks.

Borodina I, Nielsen J.

Curr Opin Biotechnol. 2005 Jun;16(3):350-5. Review.

PMID:
15961036
11.

Computational approaches to the topology, stability and dynamics of metabolic networks.

Steuer R.

Phytochemistry. 2007 Aug-Sep;68(16-18):2139-51. Epub 2007 Jun 14.

PMID:
17574639
12.

An exact arithmetic toolbox for a consistent and reproducible structural analysis of metabolic network models.

Chindelevitch L, Trigg J, Regev A, Berger B.

Nat Commun. 2014 Oct 7;5:4893. doi: 10.1038/ncomms5893.

13.

MetaNetwork: a computational protocol for the genetic study of metabolic networks.

Fu J, Swertz MA, Keurentjes JJ, Jansen RC.

Nat Protoc. 2007;2(3):685-94.

PMID:
17406631
14.

Network-based prediction of human tissue-specific metabolism.

Shlomi T, Cabili MN, Herrgård MJ, Palsson BØ, Ruppin E.

Nat Biotechnol. 2008 Sep;26(9):1003-10. doi: 10.1038/nbt.1487.

PMID:
18711341
15.

ORCA: a COBRA toolbox extension for model-driven discovery and analysis.

Mao L, Verwoerd WS.

Bioinformatics. 2014 Feb 15;30(4):584-5. doi: 10.1093/bioinformatics/btt723. Epub 2013 Dec 13.

PMID:
24336807
16.

Use of randomized sampling for analysis of metabolic networks.

Schellenberger J, Palsson BØ.

J Biol Chem. 2009 Feb 27;284(9):5457-61. doi: 10.1074/jbc.R800048200. Epub 2008 Oct 20. Review.

17.

MOVE: a multi-level ontology-based visualization and exploration framework for genomic networks.

Bosman DW, Blom EJ, Ogao PJ, Kuipers OP, Roerdink JB.

In Silico Biol. 2007;7(1):35-59.

PMID:
17688427
18.

Structural and functional analysis of cellular networks with CellNetAnalyzer.

Klamt S, Saez-Rodriguez J, Gilles ED.

BMC Syst Biol. 2007 Jan 8;1:2.

19.

Genome-scale metabolic networks.

Terzer M, Maynard ND, Covert MW, Stelling J.

Wiley Interdiscip Rev Syst Biol Med. 2009 Nov-Dec;1(3):285-97. doi: 10.1002/wsbm.37. Review.

PMID:
20835998
20.

Predicting novel pathways in genome-scale metabolic networks.

Schuster S, de Figueiredo LF, Kaleta C.

Biochem Soc Trans. 2010 Oct;38(5):1202-5. doi: 10.1042/BST0381202.

PMID:
20863284

Supplemental Content

Support Center