Journal Articles
E. Murabito, E. Simeonidis, K. Smallbone and J. Swinston (2009) Capturing the essence of a metabolic network: A Flux Balance Analysis approach. Journal of Theoretical Biology, in press.
K. Smallbone and E. Simeonidis (2009) Flux balance analysis: A geometric perspective. Journal of Theoretical Biology, 258 (2), 311-315.
I. Spasić, E. Simeonidis, H.L. Messiha, N.W. Paton and D.B. Kell (2009) KiPar, a tool for systematic information retrieval regarding parameters for kinetic modelling of yeast metabolic pathways. Bioinformatics, 25 (11), 1404-1411.
M.J. Herrgård, N. Swainston, et al. (2008) A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology. Nature Biotechnology, 26 (10), 1155-1160.
K. Smallbone, E. Simeonidis, D.S. Broomhead and D.B. Kell (2007) Something from nothing: Bridging the gap between constraint-based and kinetic modelling. FEBS Journal, 274 (21), 5576-5585.
E. Simeonidis, L. Dartnell, M. Hubank, S. Tsoka, I.D.L. Bogle and L.G. Papageorgiou (2005) Robustness of the p53 network and biological hackers. FEBS Letters, 579 (14), 3037-3042.
E. Simeonidis, M.E. Lienqueo, S. Tsoka, J.M. Pinto and L.G. Papageorgiou (2005) MINLP models for the synthesis of optimal peptide tags and downstream protein processing. Biotechnology Progress, 21 (3), 875-884.
E. Simeonidis, S.C.G. Rison, J.M. Thornton, I.D.L. Bogle and L.G. Papageorgiou (2003) Analysis of biochemical networks using a pathway distance metric through linear programming. Metabolic Engineering, 5 (3), 211-219.
Peer Reviewed Conference Proceedings
E. Simeonidis, J.M. Pinto and L.G. Papageorgiou (2005) An MILP model for optimal design of purification tags and synthesis of downstream processing. In European Symposium on Computer-Aided Process Engineering-15, L. Puigjaner / A. Espuña (eds.), pp. 1537-1542.
E. Simeonidis, L. Dartnell, I.D.L. Bogle, L.G. Papageorgiou (2005) Analysis of biochemical networks using linear programming, 7th World Congress of Chemical Engineering, Glasgow, Scotland, UK.
E. Simeonidis, J.M. Pinto and L.G. Papageorgiou (2004) Optimal peptide tag design and synthesis of downstream protein processing. In European Symposium on Computer-Aided Process Engineering-14, A. Barbosa-Povoa / H. Matos (eds.), pp.289-294.
PhD Thesis
E. Simeonidis (2005) Optimisation of Biochemical Systems, PhD Thesis, University of London (UCL), London, United Kingdom.