Items where Author is "Smallbone, Kieran"

Article

Villaverde, Alejandro F. and Henriques, David and Smallbone, Kieran and Bongard, Sophia and Schmid, Joachim and Cicin-Sain, Damjan and Crombach, Anton and Saez-Rodriguez, Julio and Mauch, Klaus and Balsa-Canto, Eva and Mendes, Pedro and Jaeger, Johannes and Banga, Julio (2015) BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology. BMC Systems Biology, 9 (8).

Gaschler, Robert and Progscha, Johanna and Smallbone, Kieran and Ram, Nilam and Bilalić, Merim (2014) Playing off the curve - testing quantitative predictions of skill acquisition theories in development of chess performance. Frontiers in Psychology, 5 (923).

Smallbone, Kieran and Corfe, Bernard M. (2014) A mathematical model of the colon crypt capturing compositional dynamic interactions between cell types. International Journal of Experimental Pathology, 95 (1). pp. 1-7.

Stanford, Natalie J. and Lubitz, Timo and Smallbone, Kieran and Klipp, Edda and Mendes, Pedro and Liebermeister, Wolfram (2013) Systematic construction of kinetic models from genome-scale metabolic networks. PLoS ONE, 8 (11). e79195.

Smallbone, Kieran and Messiha, Hanan L. and Carroll, Kathleen M. and Winder, Catherine L. and Malys, Naglis and Dunn, Warwick B. and Murabito, Ettore and Swainston, Neil and Dada, Joseph O. and Khan, Farid and Pir, Pınar and Simeonidis, Evangelos and Spasić, Irena and Wishart, Jill and Weichart, Dieter and Hayes, Neil W. and Jameson, Daniel and Broomhead, David S. and Oliver, Stephen G. and Gaskell, Simon J. and McCarthy, John E.G. and Paton, Norman W. and Westerhoff, Hans V. and Kell, Douglas B. and Pendes, Pedro (2013) A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes. FEBS Letters, 587 (17). pp. 2832-2841.

Smallbone, Kieran and Mendes, Pedro (2013) Large-Scale Metabolic Models: From Reconstruction to Differential Equations. Industrial Biotechnology, 9 (4). pp. 179-184.

Thiele, Ines and Swainston, Neil and Fleming, Ronan M.T. and Hoppe, Andreas and Sahoo, Swagatika and Aurich, Maike K. and Haraldsdottir, Hulda and Mo, Monica L. and Rolfsson, Ottar and Stobbe, Miranda D. and Thorleifsson, Stefan G. and Agren, Rasmus and Bölling, Christian and Bordel, Sergio and Chavali, Arvind K. and Dobson, Paul D. and Dunn, Warwick B. and Endler, Lukas and Hala, David and Hucka, Michael and Jameson, Daniel and Jamshidi, Neema and Jonsson, Jon J. and Juty, Nick and Keating, Sarah and Nookaew, Intawat and Le Novère, Nicolas and Malys, Naglis and Mazein, Alexander and Papin, Jason A. and Price, Nathan D. and Selkov, Sr., Evgeni and Sigurdsson, Martin I. and Simeonidis, Evangelos and Sonnenschein, Nikolaus and Smallbone, Kieran and Sorokin, Antony and van Beek, Johannes H.G.M. and Weichart, Dieter and Goryanin, Igor and Neilsen, Jens and Westerhoff, Hans V. and Kell, Douglas B, and Mendes, Pedro M. and Palsson, Bernhard Ø. (2013) A community-driven global reconstruction of human metabolism. Nature Biotechnology, 31 (5). pp. 419-425.

Mulliner, Emma and Smallbone, Kieran and Maliene, Vida (2013) An assessment of sustainable housing affordability using a multiple criteria decision making method. Omega, 41 (2). pp. 270-279.

Heavner, Benjamin D. and Smallbone, Kieran and Price, Nathan D. and Walker, Larry P. (2013) Version 6 of the consensus yeast metabolic network refines biochemical coverage and improves model performance. Database, bat059.

Cañete-Valdeón, José M. and Wieringa, Roel and Smallbone, Kieran (2012) Mechanistic modelling of cancer: some reflections from software engineering and philosophy of science. Naturwissenschaften, 99. pp. 973-983.

Lee, Dave and Smallbone, Kieran and Dunn, Warwick B. and Murabito, Ettore and Winder, Catherine L. and Kell, Douglas B. and Mendes, Pedro and Swainston, Neil (2012) Improving metabolic flux predictions using absolute gene expression data. BMC Systems Biology, 6 (73).

Heavner, Benjamin D and Smallbone, Kieran and Barker, Brandon and Mendes, Pedro and Walker, Larry P (2012) Yeast 5 - an Expanded Reconstruction of the Saccharomyces Cerevisiae Metabolic Network. BMC Systems Biology, 6 (55).

Lee, Dave and Smallbone, Kieran and Dunn, Warwick B. and Murabito, Ettore and Winder, Catherine L. and Kell, Douglas B. and Mendes, Pedro and Swainston, Neil (2012) Improving metabolic flux predictions using absolute gene expression data. BMC Systems Biology. (In Press)

Tindall, Marcus J. and Dyson, Louise and Smallbone, Kieran and Maini, Philip K. (2012) Modelling acidosis and the cell cycle in multicellular tumour spheroids. Journal of Theoretical Biology, 298. pp. 107-115.

Davies, Oluwafemi and Mendes, Pedro and Smallbone, Kieran and Malys, Naglis (2012) Characterisation of multiple substrate-specific (d)ITP/(d)XTPase and modelling of deaminated purine nucleotide metabolism. BMB Reports, 45 (4). pp. 259-264.

Mulliner, Emma and Smallbone, Kieran and Maliene, Vida (2012) An Assessment of sustainable housing affordability using a multiple criteria decision making method. Omega. (In Press)

Heavner, Benjamin D and Smallbone, Kieran and Barker, Brandon and Mendes, Pedro and Walker, Larry P (2012) Yeast 5 � an Expanded Reconstruction of the Saccharomyces Cerevisiae Metabolic Network. BMC Systems Biology. (In Press)

Tindall, Marcus J. and Dyson, Louise and Smallbone, Kieran and Maini, Philip K. (2011) Modelling acidosis and the cell cycle in multicellular tumour spheroids. Journal of Theoretical Biology. (In Press)

Stanford, Natalie J. and Smallbone, Kieran (2011) Kinetic modelling of metabolic pathways. The Bioinformatics Knowledgeblog.

Murabito, Ettore and Smallbone, Kieran and Swinton, Jonathan and Westerhoff, Hans V. and Steuer, Ralf (2011) A probabilistic approach to identify putative drug targets in biochemical networks. Journal of the Royal Society Interface, 8 (59). pp. 880-895.

Muldoon, Mark and Huke, Jeremy and Smallbone, Kieran (2011) Dave Broomhead's 60th Birthday. Mathematics Today, 47 (2). pp. 68-69.

Davies, Oluwafemi and Mendes, Pedro and Smallbone, Kieran and Malys, Naglis (2011) Characterisation of multiple substrate-specific (d)ITP/(d)XTPase and modelling of deaminated purine nucleotide metabolism. BMB Reports, 44 (11). (In Press)

Swainston, Neil and Smallbone, Kieran and Mendes, Pedro and Kell, Douglas B. and Paton, Norman W. (2011) The SuBliMinaL Toolbox: automating steps in the reconstruction of metabolic networks. Journal of Integrative Bioinformatics, 8 (2). p. 186.

Dobson, Paul D. and Smallbone, Kieran and Jameson, Daniel and Simeonidis, Evangelos and Lanthaler, Karin and Pir, Pınar and Lu, Chuan and Swainston, Neil and Dunn, Warwick B. and Fisher, Paul and Hull, Duncan and Brown, Marie and Oshota, Olusegun and Stanford, Natalie J. and Kell, Douglas B. and King, Ross D. and Oliver, Stephen G. and Stevens, Robert D. and Mendes, Pedrp (2010) Further developments towards a genome-scale metabolic model of yeast. BMC Systems Biology, 4 (195).

Simeonidis, Evangelos and Murabito, Ettore and Smallbone, Kieran and Westerhoff, Hans V. (2010) Why does yeast ferment? A flux balance analysis study. Biochemical Society Transactions, 38. pp. 1225-1229. (In Press)

Swainston, Neil and Golebiewski, Martin and Messiha, Hanan L. and Malys, Naglys and Kania, Renate and Kengne, Sylvestre and Krebs, Olga and Mir, Saqib and Sauer-Danzwith, Heidrun and Smallbone, Kieran and Weidemann, Andreas and Wittig, Ulrike and Kell, Douglas B. and Mendes, Pedro and Müller, Wolfgang and Paton, Norman W. and Rojas, Isabel (2010) Enzyme kinetics informatics: from instrument to browser. FEBS Journal, 277. pp. 3769-3779.

Smallbone, Kieran and Simeonidis, Evangelos and Swainston, Neil and Mendes, Pedro (2010) Towards a genome-scale kinetic model of cellular metabolism. BMC Systems Biology, 4. p. 6.

Murabito, Ettore and Simeonidis, Evangelos and Smallbone, Kieran and Swinton, Jonathan (2009) Capturing the essence of a metabolic network: A flux balance analysis approach. Journal of Theoretical Biology, 260 (3). pp. 445-452. ISSN 0022-5193

Murabito, Ettore and Simeonidis, Evangelos and Smallbone, Kieran and Swinton, Jonathan (2009) Capturing the essence of a metabolic network: A flux balance analysis approach. Journal of Theoretical Biology. ISSN 0022-5193 (In Press)

Smallbone, Kieran and Simeonidis, Evangelos (2009) Flux balance analysis: A geometric perspective. Journal of Theoretical Biology, 258 (2). pp. 311-315. ISSN 0022-5193

Bilalić, Merim and Smallbone, Kieran and McLeod, Peter and Gobet, Fernand (2009) Why are (the best) women so good at chess? Participation rates and gender differences in intellectual domains. Proceedings of the Royal Society B - Biological Sciences, 276. pp. 1161-1165.

Murabito, Ettore and Simeonidis, Evangelos and Smallbone, Kieran and Swinton, Jonathan (2009) Capturing the essence of a metabolic network: A flux balance analysis approach. Journal of Theoretical Biology. (In Press)

Smallbone, Kieran and Simeonidis, Evangelos and Swainston, Neil and Mendes, Pedro (2009) Towards a genome-scale kinetic model of cellular metabolism. BMC Systems Biology. (Submitted)

Smallbone, Kieran and Simeonidis, Evangelos (2008) Flux balance analysis: A geometric perspective. Journal of Theoretical Biology. ISSN 0022-5193 (In Press)

MIMS Preprint

Smallbone, Kieran and Wang, Yunjiao (2015) Mathematising biology. [MIMS Preprint]

Lee, Dave and Smallbone, Kieran and Dunn, Warwick B. and Murabito, Ettore and Winder, Catherine L. and Kell, Douglas B. and Mendes, Pedro and Swainston, Neil (2012) Constraining flux balance analysis with genome-scale data. [MIMS Preprint]

Stanford, Natalie J. and Smallbone, Kieran and Mendes, Pedro (2012) Letting the flux define the kinetics: using a single steady state to predict network behaviour under diverse stress conditions. [MIMS Preprint]

Tindall, Marcus J. and Dyson, Louise and Smallbone, Kieran and Maini, Philip K. (2009) Modelling acidosis and the cell cycle in multicellular tumour spheroids. [MIMS Preprint]

Shaw, Alexander G. and Platt, Robert J. and Withers, Jennifer K. and Blüthgen, Nils and Smallbone, Kieran and Jackson, Dean A. (2009) A stochastic-hybrid Model of DNA replication in mammalian cells. [MIMS Preprint]

Smallbone, Kieran (2009) One lump or two? [MIMS Preprint]

Book Section

Smallbone, Kieran and Stanford, Natalie J. (2013) Kinetic modelling of metabolic pathways: Application to serine biosynthesis. In: Systems Metabolic Engineering: Methods and Protocols. Methods in Molecular Biology, 985 . Humana Press, pp. 113-121.

Smallbone, Kieran and Stanford, Natalie J. (2012) Kinetic modelling of metabolic pathways: Application to serine biosynthesis. In: Systems Metabolic Engineering: Methods and Protocols. Methods in Molecular Biology . Humana Press. (In Press)

Smallbone, Kieran and Malys, Naglis and Messiha, Hanan L. and Wishart, Jill A. and Simeonidis, Evangelos (2011) Building a kinetic model of trehalose biosynthesis in Saccharomyces cerevisiae. In: Methods in Systems Biology. Methods in Enzymology, 500 . Elsevier, pp. 355-370. ISBN 978-0-12-385118-5

Mendes, Pedro and Smallbone, Kieran and Stanford, Natalie (2011) Kinetic modelling of large-scale metabolic networks. In: Proceedings of the 9th International Conference on Computational Methods in Systems Biology. Institut Henri Poincaré, Paris, France. ISBN 978-1-4503-0817-5

Maini, Philip K and Gatenby, Robert A and Smallbone, Kieran (2010) Modelling Aspects of Tumour Metabolism. In: Proceedings. International Congress of Mathematicians, Hyderabad, India, pp. 3091-3104.

Conference or Workshop Item

Maini, Philip K and Gatenby, Robert A and Smallbone, Kieran (2010) Modelling Aspects of Tumour Metabolism. In: International Congress of Mathematicians, 19-27 August 2010, Hyderabad, India. (In Press)