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Email:
andre.leier at oist.jp
 
Publications
Journal publications

    Leier, A., Barrio, M., Marquez-Lago, T. (2014), Exact model reduction with delays: Closed-form distributions and extensions to fully bi-directional monomolecular reactions. Journal of the Royal Society Interface. Accepted for publication.

    Leier, A. (2014), Emergence in simulated evolution. Genetic Programming and Evolvable Machines, 15:79-81. DOI: 10.1007/s10710-013-9201-1

    Barrio, M.*, Leier, A.*, Marquez-Lago, T.* (2013), Reduction of chemical reaction networks through delay distributions. Journal of Chemical Physics, 138, 104114.
       * All authors contributed equally.

    Marquez-Lago, T.*, Leier, A.*, and Burrage, K.(2012), Anomalous diffusion and multifractional Brownian motion: simulating molecular crowding and physical obstacles in Systems Biology. IET Systems Biology,6(4):134-142. DOI: 10.1049/iet-syb.2011.0049
       * Co-first authors.

    Leier, A., and Marquez-Lago, T. (2011), Correction factors for boundary diffusion and bimolecular reactions in reaction-diffusion master equations. Journal of Chemical Physics 135, 134109.
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       ** Research article selected for JCP focus in Biochemical Physics, Volume 5, Issue 10.
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    Hatzikirou, H., Chauviere, A., Bauer, A., Leier, A., Lewis, M., Macklin, P., Marquez-Lago, T., Bearer, E., Cristini, V. (2011), Integrative Physical Oncology. WIREs Systems Biology and Medicine.
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    Marquez-Lago, T., Leier, A. (2011), Stochastic adaptation and fold-change detection: from single-cell to population behavior. BMC Systems Biology 5:22.
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    Marquez-Lago, T., Leier, A., Burrage, K. (2010), Probability distributed time delays: integrating spatial effects into temporal models. BMC Systems Biology 4:19.
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    Leier, A., Marquez-Lago, T., Burrage, K. (2008), Generalized binomial tau-leap method for biochemical processes incorporating both delay and intrinsic noise. Journal of Chemical Physics 128, 205107 (2008).
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       ** Research article selected for JCP focus in Biochemical Physics, Volume 2, Issue 5.
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    Leier, A., Marquez-Lago, T., Burrage, K., Burrage, P. (2008), Modelling intrinsic noise and delays in chemical kinetics of coupled autoregulated oscillating cells. Int J Mult Comp Eng, Vol. 6, Issue 1: 77-86.
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    Burrage, K., Hancock, J., Leier, A., Nicolau Jr., D.V. (2007), Modelling and simulation techniques for Membrane Biology. Briefings in Bioinformatics, Vol. 8, No. 4, 234-244.
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    Leier, A., Kuo, P.D., Banzhaf, W. (2007), Analysis of preferential network motif generation in an artificial regulatory network model created by duplication and divergence. Advances in Complex Systems, 10(2):155-172.

    Barrio, M.*, Burrage, K.*, Leier, A.*, Tianhai, T.* (2006), Oscillatory Regulation of Hes1: Discrete stochastic delay modelling and simulation. PLoS Computational Biology, 2(9):e117.
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       * All authors contributed equally.

    Kuo, P.D., Banzhaf, W., Leier, A. (2006), Network topology and the evolution of dynamics in an artificial genetic regulatory network model created by whole genome duplication and divergence. BioSystems, 85(3):177-200.
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    Leier, A. , Richter, C., Banzhaf, W., Rauhe, H. (2000), Cryptography with DNA binary strands. BioSystems, 57:13-22.

Book chapters

    Burrage, K., Burrage, P., Leier, A. , Marquez Lago, T. and Nicolau, Jr., D.V. (2011), Stochastic Simulation for Spatial Modeling of Biological Processes. In Design and Analysis of Bio-molecular Circuits, Koeppl, H., Setti, G., di Bernardo, M. and Densmore D. (eds.), Springer.

    Barrio, M., Burrage, K., Burrage, P., Leier, A. and Marquez Lago, T. (2009), Computational Approaches for Modeling Intrinsic Noise and Delays in Genetic Regulatory Networks. In Computational Methodologies in Gene Regulatory Networks. Das, S., Caragea, D., Hsu, W. H. and Welch, S. M. (eds.), IGI Global.

    Banzhaf, W., Leier, A. (2005), Evolution on Neutral Networks in Genetic Programming. In Genetic Programming - Theory and Practice III, Yu, T., Riolo, R.L. and Worzel, B. (eds.), Chapter 14, pp. 207 -- 221, Springer.

Proceedings

    Burrage, K., Burrage, P., Leier, A., Marquez-Lago, T. (2008), Stochastic delay models for molecular clocks and somite formation. In Proceedings of SPIE. Complex Systems II. Abbott, D. et al. (Eds.), 68020Z, Vol. 6802.

    Leier, A., Burrage, P., Burrage, K. (2007), Stochastic modelling and simulation of coupled autoregulated oscillators in a multicellular environment: the her1/her7 genes. In Proceedings of the International Conference on Computational Science 2007 (ICCS 2007). Shi, Y. et al. (Eds.), Lecture Notes in Computer Science, Part I, Vol. 4487, pp. 778-785, Springer.

    Leier, A., Burrage, K. (2006), Evolving genetic regulatory networks performing as stochastic switches. In Proceedings of the Artificial Intelligence and Simulation of Behaviour (AISB) conference 2006: Adaptation in Artificial and Biological Systems. Kovacs, T. and Marshall, A.R. (Eds.), Vol. 3, pp. 150-157, Society for the Study of AI and Simulation of Behaviour.

    Leier, A., Kuo, P.D., Banzhaf, W., Burrage, K. (2006), Evolving noisy oscillatory dynamics in genetic regulatory networks. In Proceedings of the 9th European Conference on Genetic Programming, EuroGP 2006. Collet, P. et al. (Eds.), Lecture Notes in Computer Science, Vol. 3905, pp. 290-299, Springer.

    Kuo, P.D., Leier, A., Banzhaf, W. (2004), Evolving dynamics in an artificial regulatory network model. In Proceedings of the 8th International Conference on Parallel Problem Solving from Nature (PPSN VIII), Yao, X. et al. (Eds.), Lecture Notes in Computer Science, Vol. 3242, pp. 571-580, Springer.

    Leier, A., Banzhaf, W. (2004), Comparison of Selection Strategies for Evolutionary Quantum Circuit Design. In Proceedings of the Genetic and Evolutionary Computation Conference (GECCO) 2004, Deb, K. et al. (Eds.), Lecture Notes in Computer Science, Vol. 3103, Part II, pp. 557-568, Springer.

    Leier, A., Banzhaf, W. (2003), Exploring the Search Space of Quantum Programs. In Proceedings of the 2003 Congress on Evolutionary Computation (CEC), Sarker, R. et al. (Eds.), Vol. 1, pp. 170-177, IEEE Computer Society Press.

    Leier, A., Banzhaf, W. (2003), Evolving Hogg's Quantum Algorithm Using Linear-Tree GP. In Proceedings of the Genetic and Evolutionary Computation Conference (GECCO) 2003, Cantú-Paz, E. et al. (Eds.), Lecture Notes in Computer Science, Vol. 2724, Part I, pp. 390-400, Springer.

Last updated: Mar. 2014