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Ronan Mt Fleming

Ronan Mt Fleming

Senior Research Associate

Faculty or Centre Luxembourg Centre for Systems Biomedicine
Postal Address Campus Belval, Université du Luxembourg
7, Avenue des Hauts Fourneaux
Campus Office 3.05B
Telephone (+352) 46 66 44 5528
Video Dr. Ronan Fleming (LCSB)
Dr. Ronan Fleming (LCSB)
Joined the University in 2013
Ronan Fleming (LCSB)

Principal Investigator in the Systems Biochemistry group (Fleming Lab)

Last updated on: Wednesday, 09 July 2014

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In press

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See detailGlobally convergent algorithms for finding zeros of duplomonotone mappings
Aragón Artacho, Francisco Javier; Fleming, Ronan MT

in Optimization Letters (in press)

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See detailFASTGAPFILL: Efficient gap filling in metabolic networks
Thiele, Ines; Vlassis, Nikos; Fleming, Ronan MT

in Bioinformatics (2014)

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See detailSystems-level characterization of a host-microbe metabolic symbiosis in the mammalian gut.
Heinken, Almut; Sahoo, Swagatika; Fleming, Ronan MT; Thiele, Ines

in Gut microbes (2013), 4(1), 28-40

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See detailReal-time optical pH measurement in a standard microfluidic cell culture system
Magnusson, E. B.; Halldorsson, S.; Fleming, Ronan MT; Leosson, K.

in Biomedical Optics Express (2013), 4(9), 1749--1758

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See detailConsistent Estimation of Gibbs Energy Using Component Contributions
Noor, Elad; Haraldsdottir, Hulda; Milo, Ron; Fleming, Ronan MT

in PLoS Computational Biology (2013), 9(7), 1003098

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See detailRobust flux balance analysis of multi- scale biochemical reaction networks
Sun, Y; Fleming, Ronan MT; Thiele, Ines; Saunders, MA

in BMC Bioinformatics (2013)

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See detailA systems biology approach to studying the role of microbes in human health.
Thiele, Ines; Heinken, Almut Katrin; Fleming, Ronan MT

in Current Opinion in Biotechnology (2013), 24(1), 4-12

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See detailA community-driven global reconstruction of human metabolism.
Thiele, Ines; Swainston, N.; Fleming, Ronan MT; Hoppe, A.; Sahoo, Swagatika; Aurich, Maike Kathrin; Haraldsdottir, Hulda; Mo, M. L.; Rolfsson, O.; Stobbe, M. D.; Thorleifsson, S. G.; Agren, R.; Bölling, C.; Bordel, S.; Chavali, A. K.; Dobson, P.; Dunn, W. B.; Endler, L.; Hala, D.; Hucka, M.; Hull, D.; Jameson, D.; Jamshidi, N.; Jonsson, J. J.; Juty, N.; Keating, S.; Nookaew, I.; Le Novère, N.; Malys, N.; Mazein, A.; Papin, J. A.; Price, N. D.; Selkov, E. Sr; Sigurdsson, M. I.; Simeonidis, Evangelos; Sonnenschein, N.; Smallbone, K.; Sorokin, A.; van Beek, J. H.; Weichart, D.; Goryanin, I.; Nielsen, J.; Westerhoff, H. V.; Kell, D. B.; Mendes, P.; Palsson, B. O.

in Nature Biotechnology (2013)

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See detailA variational principle for computing nonequilibrium fluxes and potentials in genome-scale biochemical networks
Fleming, Ronan MT; Maes, C. M.; Saunders, M. A.; Ye, Y.; Palsson, B. O.

in Journal of Theoretical Biology (2012), 292

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See detailQuantitative Assignment of Reaction Directionality in a Multicompartmental Human Metabolic Reconstruction
Haraldsdottir, Hulda; Thiele, Ines; Fleming, Ronan MT

in Biophysical Journal (2012), 102(8), 17031711

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See detailMonitoring metabolites consumption and secretion in cultured cells using ultra-performance liquid chromatography quadrupole-time of flight mass spectrometry (UPLC-Q-ToF-MS).
Paglia, Giuseppe; Hrafnsdottir, Sigrun; Magnusdottir, Manuela; Fleming, Ronan MT; Thorlacius, Steinunn; Palsson, Bernhard O.; Thiele, Ines

in Analytical and Bioanalytical Chemistry (2012), 402(3), 1183-98

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See detailA systems biology approach to drug targets in Pseudomonas aeruginosa biofilm.
Sigurdsson, Gunnar; Fleming, Ronan MT; Heinken, Almut; Thiele, Ines

in PLoS ONE (2012), 7(4), 34337

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See detailMultiscale modeling of metabolism and macromolecular synthesis in E. coli and its application to the evolution of codon usage.
Thiele, Ines; Fleming, Ronan MT; Que, Richard; Bordbar, Aarash; Diep, Dinh; Palsson, Bernhard O.

in PLoS ONE (2012), 7(9), 45635

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See detailvon Bertalanffy 1.0: a COBRA toolbox extension to thermodynamically constrain metabolic models.
Fleming, Ronan MT; Thiele, Ines

in Bioinformatics (Oxford, England) (2011), 27(1), 142-3

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See detailQuantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0.
Schellenberger, Jan; Que, Richard; Fleming, Ronan MT; Thiele, Ines; Orth, Jeffrey D.; Feist, Adam M.; Zielinski, Daniel C.; Bordbar, Aarash; Lewis, Nathan E.; Rahmanian, Sorena; Kang, Joseph; Hyduke, Daniel R.; Palsson, Bernhard O.

in Nature Protocols (2011), 6(9), 1290-307

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See detailA community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.
Thiele, Ines; Hyduke, Daniel R.; Steeb, Benjamin; Fankam, Guy; Allen, Douglas K.; Bazzani, Susanna; Charusanti, Pep; Chen, Feng-Chi; Fleming, Ronan MT; Hsiung, Chao A.; De Keersmaecker, Sigrid C. J.; Liao, Yu-Chieh; Marchal, Kathleen; Mo, Monica L.; Ozdemir, Emre; Raghunathan, Anu; Reed, Jennifer L.; Shin, Sook-Il; Sigurbjornsdottir, Sara; Steinmann, Jonas; Sudarsan, Suresh; Swainston, Neil; Thijs, Inge M.; Zengler, Karsten; Palsson, Bernhard O.; Adkins, Joshua N.; Bumann, Dirk

in BMC Systems Biology (2011), 5

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See detailIntegrated stoichiometric, thermodynamic and kinetic modelling of steady state metabolism.
Fleming, Ronan MT; Thiele, Ines; Provan, G.; Nasheuer, H. P.

in Journal of Theoretical Biology (2010), 264(3), 683-92

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See detailReconstruction and use of microbial metabolic networks: the core Escherichia coli metabolic model as an educational guide
Orth, J. D.; Fleming, Ronan MT; Palsson, B. O.

in Chapter 10.2.1 in Escherichia coli and Salmonella: Cellular and Molecular Biology, Washington, DC. (2010)

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See detailFunctional characterization of alternate optimal solutions of Escherichia coli's transcriptional and translational machinery.
Thiele, Ines; Fleming, Ronan MT; Bordbar, Aarash; Schellenberger, Jan; Palsson, Bernhard O.

in Biophysical Journal (2010), 98(10), 2072-81

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See detailQuantitative assignment of reaction directionality in constraint-based models of metabolism: application to Escherichia coli.
Fleming, Ronan MT; Thiele, Ines; Nasheuer, H. P.

in Biophysical Chemistry (2009), 145(2-3), 47-56

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See detailGenome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: a knowledge base, its mathematical formulation, and its functional characterization.
Thiele, Ines; Jamshidi, Neema; Fleming, Ronan MT; Palsson, Bernhard O.

in PLoS Computational Biology (2009), 5(3), 1000312

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