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Results: 1 to 20 of 111

1.

Improving metabolic flux predictions using absolute gene expression data.

Lee D, Smallbone K, Dunn WB, Murabito E, Winder CL, Kell DB, Mendes P, Swainston N.

BMC Syst Biol. 2012 Jun 19;6:73. doi: 10.1186/1752-0509-6-73.

PMID:
22713172
[PubMed - indexed for MEDLINE]
2.

Linking high-resolution metabolic flux phenotypes and transcriptional regulation in yeast modulated by the global regulator Gcn4p.

Moxley JF, Jewett MC, Antoniewicz MR, Villas-Boas SG, Alper H, Wheeler RT, Tong L, Hinnebusch AG, Ideker T, Nielsen J, Stephanopoulos G.

Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6477-82. doi: 10.1073/pnas.0811091106. Epub 2009 Apr 3.

PMID:
19346491
[PubMed - indexed for MEDLINE]
3.

Genome-scale metabolic flux analysis of Streptomyces lividans growing on a complex medium.

D'Huys PJ, Lule I, Vercammen D, Anné J, Van Impe JF, Bernaerts K.

J Biotechnol. 2012 Sep 15;161(1):1-13. doi: 10.1016/j.jbiotec.2012.04.010. Epub 2012 May 26.

PMID:
22641041
[PubMed - indexed for MEDLINE]
4.

Prediction of metabolic fluxes by incorporating genomic context and flux-converging pattern analyses.

Park JM, Kim TY, Lee SY.

Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14931-6. doi: 10.1073/pnas.1003740107. Epub 2010 Aug 2.

PMID:
20679215
[PubMed - indexed for MEDLINE]
5.

Metabolic flux distributions: genetic information, computational predictions, and experimental validation.

Blank LM, Kuepfer L.

Appl Microbiol Biotechnol. 2010 May;86(5):1243-55. doi: 10.1007/s00253-010-2506-6. Epub 2010 Mar 16. Review.

PMID:
20232063
[PubMed - indexed for MEDLINE]
6.

Predicting biological system objectives de novo from internal state measurements.

Gianchandani EP, Oberhardt MA, Burgard AP, Maranas CD, Papin JA.

BMC Bioinformatics. 2008 Jan 24;9:43. doi: 10.1186/1471-2105-9-43.

PMID:
18218092
[PubMed - indexed for MEDLINE]
7.

Connecting extracellular metabolomic measurements to intracellular flux states in yeast.

Mo ML, Palsson BO, Herrgård MJ.

BMC Syst Biol. 2009 Mar 25;3:37. doi: 10.1186/1752-0509-3-37.

PMID:
19321003
[PubMed - indexed for MEDLINE]
8.

Genome-scale model for Clostridium acetobutylicum: Part II. Development of specific proton flux states and numerically determined sub-systems.

Senger RS, Papoutsakis ET.

Biotechnol Bioeng. 2008 Dec 1;101(5):1053-71. doi: 10.1002/bit.22009.

PMID:
18767191
[PubMed - indexed for MEDLINE]
9.

Steady-state and dynamic flux balance analysis of ethanol production by Saccharomyces cerevisiae.

Hjersted JL, Henson MA.

IET Syst Biol. 2009 May;3(3):167-79. doi: 10.1049/iet-syb.2008.0103.

PMID:
19449977
[PubMed - indexed for MEDLINE]
10.

Identification of genome-scale metabolic network models using experimentally measured flux profiles.

Herrgård MJ, Fong SS, Palsson BØ.

PLoS Comput Biol. 2006 Jul 7;2(7):e72. Epub 2006 May 10.

PMID:
16839195
[PubMed - indexed for MEDLINE]
11.

Bridging the gap between gene expression and metabolic phenotype via kinetic models.

Vital-Lopez FG, Wallqvist A, Reifman J.

BMC Syst Biol. 2013 Jul 22;7:63. doi: 10.1186/1752-0509-7-63.

PMID:
23875723
[PubMed - indexed for MEDLINE]
12.

Flux Design: In silico design of cell factories based on correlation of pathway fluxes to desired properties.

Melzer G, Esfandabadi ME, Franco-Lara E, Wittmann C.

BMC Syst Biol. 2009 Dec 25;3:120. doi: 10.1186/1752-0509-3-120.

PMID:
20035624
[PubMed - indexed for MEDLINE]
13.

Predicting metabolic fluxes using gene expression differences as constraints.

van Berlo RJ, de Ridder D, Daran JM, Daran-Lapujade PA, Teusink B, Reinders MJ.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Jan-Mar;8(1):206-16. doi: 10.1109/TCBB.2009.55.

PMID:
21071808
[PubMed - indexed for MEDLINE]
14.

Integration of gene expression data into genome-scale metabolic models.

Akesson M, Förster J, Nielsen J.

Metab Eng. 2004 Oct;6(4):285-93.

PMID:
15491858
[PubMed - indexed for MEDLINE]
15.

Inferring metabolic states in uncharacterized environments using gene-expression measurements.

Rossell S, Huynen MA, Notebaart RA.

PLoS Comput Biol. 2013;9(3):e1002988. doi: 10.1371/journal.pcbi.1002988. Epub 2013 Mar 21.

PMID:
23555222
[PubMed - indexed for MEDLINE]
16.

Optimality criteria for the prediction of metabolic fluxes in yeast mutants.

Snitkin ES, Segrè D.

Genome Inform. 2008;20:123-34.

PMID:
19425128
[PubMed - indexed for MEDLINE]
17.

MicrobesFlux: a web platform for drafting metabolic models from the KEGG database.

Feng X, Xu Y, Chen Y, Tang YJ.

BMC Syst Biol. 2012 Aug 2;6:94.

PMID:
22857267
[PubMed - indexed for MEDLINE]
18.

Flux coupling analysis of genome-scale metabolic network reconstructions.

Burgard AP, Nikolaev EV, Schilling CH, Maranas CD.

Genome Res. 2004 Feb;14(2):301-12. Epub 2004 Jan 12.

PMID:
14718379
[PubMed - indexed for MEDLINE]
19.

Effect of carbon source perturbations on transcriptional regulation of metabolic fluxes in Saccharomyces cerevisiae.

Cakir T, Kirdar B, Onsan ZI, Ulgen KO, Nielsen J.

BMC Syst Biol. 2007 Mar 27;1:18.

PMID:
17408508
[PubMed - indexed for MEDLINE]
20.

Flux variability scanning based on enforced objective flux for identifying gene amplification targets.

Park JM, Park HM, Kim WJ, Kim HU, Kim TY, Lee SY.

BMC Syst Biol. 2012 Aug 21;6:106. doi: 10.1186/1752-0509-6-106.

PMID:
22909053
[PubMed - indexed for MEDLINE]

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