The Mathematical Institute, University of Oxford, Eprints Archive

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Number of items: 35.

Article

Cotter, S L and Vejchodsky, T. and Erban, R. (2013) Adaptive finite element method assisted by stochastic simulation of chemical systems. Siam Journal on Scientific Computing, 35 (1). B107-B131.

Flegg, M. B. and Rudiger, S and Erban, R. (2013) Diffusive spatio-temporal noise in a first-passage time model for intracellular calcium release. Journal of Chemical Physics, 138 (15). p. 154103.

Schlackow, M and Marguerat, S and Proudfoot, N and Bahler, J and Erban, R. and Gullerova, M (2013) Genome-wide analysis of poly(A) site selection in schizosaccharomyces pombe,. RNA, 19 . pp. 1-15.

Franz, B. and Flegg, M. B. and Chapman, S. J. and Erban, R. (2013) Multiscale reaction-diffusiion algorithms: PDE-assisted Brownian dynamics. SIAM Journal of Applied Mathematics, 73 (3). pp. 1224-1247.

Klingbeil, G. and Erban, R. and Giles, M. B. and Maini, P. K. (2012) Fat versus thin threading approach on GPUs: application to stochastic simulation of chemical reactions. IEEE Transactions on Parallel & Distributed Systems, 23 (2). pp. 280-287.

Chen, W. and Erban, R. and Chapman, S. J. (2012) From Brownian dynamics to Markov chain: an ion channel example. SIAM Journal on Applied Mathematics . (Submitted)

Yates, C. A. and Baker, R. E. and Erban, R. and Maini, P. K. (2012) Going from microscopic to macroscopic on nonuniform growing domains. Physical Review E, 86 (2). 021921-1-02921-20.

Franz, B. and Flegg, M. B. and Chapman, S. J. and Erban, R. (2012) Multiscale reaction-diffusion algorithms: pde-assisted
Brownian dynamics.
SIAM Journal on Applied Mathematics . (Submitted)

Erban, R. and Flegg, M. B. and Papoian, G. A. (2012) Multiscale stochastic reaction-diffusion modelling: application to actin dynamics in filopodia. Bulletin of Mathematical Biology . (Submitted)

Séguis, J. - C. and Burrage, K. and Erban, R. and Kay, D. (2012) Simulation of cell movement through evolving environment: a fictitious domain approach. Journal of Computational Physics . (Submitted)

Cotter, S. L. and Vejchodsky, T. and Erban, R. (2011) Adaptive finite element method assisted by stochastic simulation of chemical systems. SIAM Journal on Scientific Computing . (Submitted)

Cotter, S. L. and Zygalakis, K. C. and Kevrekidis, I. G. and Erban, R. (2011) A Constrained Approach to Multiscale Stochastic Simulation of
Chemically Reacting Systems.
Journal of Chemical Physics . (Submitted)

Luo, C. and Majumdar, A. and Erban, R. (2011) The dynamics of bistable liquid crystal wells. Journal of Computational Physics . (Submitted)

Erban, R. and Haskovec, J. (2011) From individual to collective behaviour of coupled velocity jump processes: a locust example. Annales de l'Institut Henri Poincaré (C) Analyse Non Linéaire . (Submitted)

Székely Jr., T. and Burrage, K. and Erban, R. and Zygalakis, K. C. (2011) Higher-order numerical methods for stochastic simulation of
chemical reaction systems.
Journal of Chemical Physics . (Submitted)

Klingbeil, G. and Erban, R. and Giles, M. B. and Maini, P. K. (2011) STOCHSIMGPU: parallel stochastic simulation for the sytems biology toolbox 2 for matlab. Bioinformatics, 27 (8). pp. 1170-1171.

Flegg, M. B. and Chapman, S. J. and Erban, R. (2011) The Two Regime method for optimizing stochastic reaction-diffusion simulations. Proceedings of the National Academy of Sciences . (Submitted)

Lipkova, J. and Zygalakis, K. C. and Chapman, S. J. and Erban, R. (2010) Analysis of Brownian dynamics simulations of reversible biomolecular reactions. SIAM Journal on Applied Mathematics . ISSN 1095-712X (Submitted)

Cominetti, Ornella and Matzavinos, Anastasios and Samarasinghe, Sandhya and Kulasiri, Don and Liu, Sijia and Maini, P. K. and Erban, R. (2010) DifFUZZY: A fuzzy clustering algorithm for complex data sets. International Journal of Computational Intelligence in Bioinformatics & Systems Biology, 1 (4). 402-417 .

Escudero, C. and Yates, C. A. and Buhl, J. and Couzin, I. D. and Erban, R. and Kevrekidis, I. G. (2010) Ergodic directional switching in mobile insect groups. Physical Review E, 82 (1). 011926 (6 pages).

Klingbeil, G. and Erban, R. and Giles, M. B. and Maini, P. K. (2010) Fat vs. thin threading approach on GPUs: application to stochastic simulation of chemical reactions. IEEE Transactions on Parallel & Distributed Systems . (Submitted)

Baker, Ruth E. and Yates, C. A. and Erban, R. (2010) From Microscopic to Macroscopic Descriptions of Cell Migration on Growing Domains. Bulletin of Mathematical Biology . ISSN 0092-8240 (In Press)

Yates, C. A. and Baker, R. E. and Erban, R. and Maini, P. K. (2010) Refining self-propelled particle models for collective behaviour,. Canadian Applied Mathematics Quarterly, 18 (3). pp. 299-350.

Klingbeil, G. and Erban, R. and Giles, M. B. and Maini, P. K. (2010) STOCHSIMGPU Parallel stochastic simulation for the Systems
Biology Toolbox 2 for MATLAB.
Bioinformatics . (Submitted)

Xue, C. and Hwang, H. J. and Painter, K. J. and Erban, R. (2010) Travelling waves in hyperbolic chemotaxis equations. Bulletin of Mathematical Biology . ISSN 0092-8240 (Submitted)

Erban, R. and Chapman, S. J. and Kevrekidis, I. G. and Vejchodsky, T. (2009) Analysis of a stochastic chemical system close to a sniper bifurcation of its mean field model. Not specified . (Submitted)

Singer, A and Erban, R. and Kevrekidis, I. G. and Coifman, R (2009) Detecting intrinsic slow variables in stochastic dynamical systems by anisotropic diffusion maps. Proceedings of the National Academy of Sciences, 106 (38). pp. 16090-16095. ISSN 1091-6490

Xue, Chuan and Othmer, H. G. and Erban, R. (2009) From Individual to Collective Behavior of Unicellular Organisms: Recent Results and Open Problems. Not specified . (Submitted)

Baker, Ruth E. and Yates, C. A. and Erban, R. (2009) From microscopic to macroscopic descriptions of cell
migration on growing domains.
Not specified . (Submitted)

Yates, C. A. and Erban, R. and Escudero, C. and Couzin, I. D. and Buhl, J. and Kevrekidis, I. G. and Maini, P. K. and Sumpter, D. J. T. (2009) Inherent noise can facilitate coherence in collective swarm motion. Not specified . (Submitted)

Yates, C. A. and Erban, R. and Escudero, C. and Couzin, I. D. and Buhl, J. and Kevrekidis, I. G. and Maini, P. K. and Sumpter, D. J. T. (2009) Inherent noise can facilitate coherence in collective swarm motion. PNAS, 106 (14). pp. 5464-5469.

Erban, R. and Chapman, S. J. (2009) Stochastic modelling of reaction-diffusion processes:
algorithms for bimolecular reactions.
Not specified . (Submitted)

Erban, R. and Chapman, S. J. (2007) Time scale of random sequential adsorption. Physical Review E, 75 (4). 041116-041120. ISSN 1539-3755

Erban, R. and Chapman, S. J. and Fisher, K D and Kevrekidis, I. G. and Seymour, L W (2007) Dynamics of polydisperse irreversible adsorption: a pharmacological example. Mathematical Models and Methods in Applied Sciences, 17 (5). pp. 759-781.

Book Section

Franz, B. and Erban, R. (2011) Hybrid modelling of individual movement and collective behaviour. In: Dispersal, individual movement and spatial ecology: A mathematical perspective. Springer. (Submitted)

This list was generated on Mon Dec 22 03:24:46 2014 GMT.