Journal Articles
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.
Refereed Book Chapters
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, 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.
Refereed Conference Papers
E. Simeonidis, K. Smallbone, D.S. Broomhead, D.B. Kell (2007) Bridging the gap between constraint-based and kinetic modelling, SysBioHealth Symposium 2007, University of Milano-Bicocca, Milan, Italy.
E. Murabito, E. Simeonidis, F. Bruggeman (2007) Selecting among the multiple alternate optimal solutions of the Flux Balance Analysis of yeast metabolism: Use of the adaptational potential of the organism, 8th International Conference on Systems Biology, Long Beach, California, USA.
I. Spasic, E. Simeonidis, N. Paton, D.B. Kell (2007) Systematic screening of yeast kinetic parameters for metabolic models using a text mining toolbox, 8th International Conference on Systems Biology, Long Beach, California, USA.
K. Smallbone, E. Simeonidis, D.S. Broomhead, D.B. Kell (2007) Bridging the gap between constraint-based and kinetic modelling, 8th International Conference on Systems Biology, Long Beach, California, USA.
E. Simeonidis and B. Papp (2007) Flux Balance Analysis and its applications. BioSysBio 2007: Systems Biology, Bioinformatics, Synthetic Biology, Manchester, United Kingdom (meeting abstracts published in BMC Systems Biology).
E. Simeonidis, L. Dartnell, I.D.L. Bogle and L.G. Papageorgiou (2005) Analysis of biochemical networks using linear programming. 7th World Congress of Chemical Engineering, Glasgow, Scotland, United Kingdom.
E. Simeonidis, S.C.G. Rison, J.M. Thornton, I.D.L. Bogle and L.G. Papageorgiou (2002) Use of a pathway distance metric through linear programming for the analysis of metabolic networks. Metabolic Engineering IV: Applied Systems Biology, Il Ciocco, Italy.
S.C.G. Rison, E. Simeonidis, J.M. Thornton, I.D.L. Bogle and L.G. Papageorgiou (2001) A rapid algorithm for generating minimal pathway distances. 9th International Conference on Intelligent Systems for Molecular Biology, Copenhagen, Denmark.
E. Simeonidis, E. Stivaktakis and M. Mitrakas (1999) Bromate ions: Formation - Control Methods - Removal techniques. Environmental Technology for the 21st Century, Thessaloniki, Greece.
PhD Thesis
E. Simeonidis (2005) Optimisation of Biochemical Systems, PhD Thesis, University of London (UCL), London, United Kingdom.