The Mathematical Institute, University of Oxford, Eprints Archive

Items where Year is 2013

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Number of items: 119.


Alber, M and Maini, P. K. and Niebur, G (2013) Biomedical modeling: the role of transport and mechanics. Bulletin of Mathematical Biology, 75 (8). pp. 1233-1237. ISSN 0092-8240

Allen, R. and Reis, T. (2013) A lattice Boltzmann model for natural convection in cavities. International Journal of Heat and Fluid Flow . (Submitted)

Ang, Xing Xian (2013) A Mixed PDE/Monte Carlo approach as an efficient way to price under high-dimensional systems. Masters thesis, Oxford University.

Austin, Anthony P. and Kravanja, Peter and Trefethen, Lloyd N. (2013) Numerical algorithms based on analytic function values at roots of unity. Technical Report. SINUM. (Submitted)


Bassett, D S and Porter, M A and Wymbs, N F and Grafton, S T and Carlson, J M and Mucha, P J (2013) Robust detection of dynamic community structure in networks. Chaos, 23 (1). 013142.

Bassett, D S and Wymbs, N F and Rombach, M P and Porter, M A and Mucha, P J and Grafton, S T (2013) Task-based core-periphery organization of human brain dynamics. PLOS Computational Biology, 9 (9). e1003171.

Belmonte-Beitia, J and Woolley, T. E. and Scott, J G and Maini, P. K. and Gaffney, E. A. (2013) Modelling biological invasions: individual to population scales at interfaces. Journal of Theoretical Biology, 334 . pp. 1-12.

Birkisson, Asgeir and Driscoll, Tobin A. (2013) Automatic linearity detection. Technical Report. SICS. (Submitted)

Blanchard, Jeffrey D. and Tanner, Jared (2013) Performance Comparisons of Greedy Algorithms in Compressed Sensing. Technical Report. Wiley. (Submitted)

Bosch, Jessica and Kay, David and Stoll, Martin and Wathen, A. J. (2013) Fast Solvers for Cahn-Hilliard Inpainting. Technical Report. SIAM. (Submitted)

Bowden, L and Simpson, M J and Baker, R. E. (2013) Design and interpretation of cell trajectory assays. Journal of the Royal Society Interface, 10 (88). pp. 1742-1755.

Brackmann, Hendrik (2013) Hedging Strategies Under Temporary Market Impact. Masters thesis, Oxford University.

Britton, O.J. and Bueno-Orovio, A. and van Ammel, K. and Lu, H.R. and Towart, R. and Gallacher, D.J. and Rodriguez, B. (2013) Experimentally-calibrated population of models predicts and explains inter-subject variability in cardiac cellular
PNAS . (Submitted)

Bruna, M. and Chapman, S. J. (2013) Diffusion of finite-size particles in confined geometries. Bulletin of Mathematical Biology . (Submitted)

Bueno-Orovio, A. and Kay, D. and Grau, V. and Rodriguez, B. and Burrage, K. (2013) Fractional diffusion models of cardiac electrical propagation: role of structural heterogeneity in dispersion of repolarization. Nature Communications . (Submitted)

Bueno-Orovio, A. and Sánchez, C. and Pueyo, E. and Rodriguez, B. (2013) Na/K pump regulation of cardiac repolarization: Insights from a systems biology approach. European Journal of Physiology . (Submitted)


Cartis, Coralia and Thompson, Andrew (2013) A new and improved quantitative recovery analysis for iterative hard thresholding algorithms in compressed sensing. Technical Report. Unspecified. (Submitted)

Carvalho, G D and Miranda, J A and Gadelha, H (2013) Interfacial elastic fingering in Hele-Shaw cells: a weakly nonlinear study. Physical Review E, 88 (5). 053006.

Chandler-Wilde, S. N. and Hewett, David Peter (2013) Acoustic scattering by fractal screens: mathematical formulations and wavenumber-explicit continuity and coercivity estimates. Technical Report. to be decided. (Unpublished)

Chirat, R. and Moulton, D. E. and Goriely, A. (2013) Mechanical basis of morphogenesis and convergent evolution of spiny seashells. Proceedings of the National Academy of Sciences, 110 (15). pp. 6015-6020. ISSN 1091-6490

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.

Cotter, S. L. and Klika, V. and Kimpton, L.S. and Collins, S.L and Heazell, A. E. P. (2013) A stochastic model for early placental development. Journal of the Royal Society Interface . (Submitted)

Curtis, M P and Gaffney, E A (2013) The three sphere swimmer in a nonlinear viscoelastic medium. Physical Review E, 87 (4). 043006.


Farrell, P. and Wendland, H. (2013) RBF multiscale collocation for second order elliptic boundary value problems. SIAM Journal on Numerical Analysis . (Submitted)

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.

Fletcher, A G and Osborne, J. M. and Maini, P. K. and Gavaghan, D. J. (2013) Implementing vertex dynamics models of cell populations in biology within a consistent computational framework. Progress in Biophysics and Molecular Biology, 113 . pp. 299-326.

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.


Gadelha, H (2013) On the optimal shape of magnetic swimmers. Regular and Chaotic Dynamics, 18 (1-2). pp. 75-84.

Gadelha, H and Gaffney, E. A. and Goriely, A. (2013) The counterbend phenomenon in flagellar axonemes and cross-linked filament bundles. PNAS, 110 (30). pp. 12180-12185.

Goriely, A. and Tabor, M. (2013) Rotation, inversion, and perversion in anisotropic elastic cylindrical tubes and membranes. Proceedings of The Royal Society A . (Submitted)

Guettel, Stefan and Klein, Georges (2013) Efficient high-order rational integration and deferred correction with equispaced data. Technical Report. Unspecified. (Submitted)


Hale, Nicholas and Townsend, Alex (2013) A fast, simple, and stable Chebyshev-Legendre transform using an asymptotic formula. Technical Report. Unspecified. (Submitted)

Hauser, Raphael (2013) The S-Procedure via dual cone calculus. Technical Report. Unspecified. (Submitted)

Hauser, Raphael and Krishnamurthy, Vijay and Tütüncü, Reha (2013) Relative Robust Portfolio Optimization. Technical Report. Unspecified. (Submitted)

Hauser, Raphael and Matzinger, Heinrich (2013) Letter Change Bias and Local Uniqueness in Optimal Sequence Alignments. Technical Report. Unspecified.

Heath-Brown, D. R. (2013) Power-free values of polynomials. Quart J Math Oxford Ser (2), 64 . pp. 177-188.

Heath-Brown, D. R. (2013) $p$-adic Zeros of Systems of Quadratic Forms. Contemporary Mathematics, 587 . pp. 131-139.

Heath-Brown, D. R. and Bui, H.M. (2013) On simple zeros of the Riemann zeta-function. Bull. London Math. Soc., 45 . pp. 953-961.

Herterich, J.G. and Griffiths, I.M. and Field, R.W. and Vella, D. (2013) The effect of a concentration-dependent viscosity on
particle transport in a channel flow with porous walls.
AIChE Journal . (Submitted)

Hewett, David Peter and Langdon, S. and Chandler-Wilde, S. N. (2013) A frequency-independent boundary element method for scattering by two-dimensional screens and apertures. Technical Report. IMAJNA. (Submitted)

Holland, M. A. and Kosmata, T. and Goriely, A. and Kuhl, E. (2013) On the mechanics of thin films and growing surfaces. Mathematics and Mechanics of Solids . (Submitted)


Ishimoto, K and Gaffney, E A (2013) Squirmer dynamics near a boundary. Physical Review E, 88 (6). 062702.


Javed, Mohsin and Trefethen, Lloyd N. (2013) A trapezoidal rule error bound unifying the Euler–Maclaurin formula and geometric convergence for periodic functions. Technical Report. Proceedings of the Royal Society A. (Submitted)


Kefala, M and Papageorgiou, S G and Kontos, C K and Economopoulou, P and Tsanas, A and Panayiotides, I G and Gorgoulis, V G and Patsouris, E and Foukas, P G (2013) Increased expression of phosphorrylated NBS1, a key molecule of the DNA damage response machinery, is an adverse prognostic factor in patients with de novo myelodysplastic syndromes. Leukemia Research, 37 (11). pp. 1576-1582.

Kelly, S and Maini, P. K. (2013) DendroBlast: approximate phylogenetic trees in the absence of multiple sequence alignments. Plos One, 8 (3). e58537-(11 pages).

Ketcheson, D. I. and Macdonald, C. B. and Ruuth, S. J. (2013) Spatially partitioned embedded Runge-Kutta Methods. SIAM Journal on Numerical Analysis . (Submitted)

Kimpton, L.S. and Whiteley, J.P. and Waters, S.L. and Oliver, J.M. (2013) On a poroviscoelastic model for cell crawling. Journal of Mathematical Biology . (Submitted)

Knoche, S. and Vella, D. and Aumaitre, E. and Degen, P. and Rehage, H. and Cicuta, P. and Kierfeld, J. (2013) Elastometry of deflated capsules elastic moduli from shape and wrinkle analysis. Physical Review Letters . (Submitted)

Knox, D. J. and Wilson, S. K. and Duffy, B. R. and McKee, S. (2013) Porous squeeze-film flow. IMA Journal of Applied Mathematics . (Submitted)

Kursawe, J and Schulz, J and Metzler, R (2013) Transient aging in fractional Brownian and Langevin-equation motion. Physical Review E, 88 . 062124.


Lai, Y M and Porter, M A (2013) Noise-induced synchronization desychronization and clustering in globally coupled nonidentical oscillators. Physical Review E, 88 (1). 012905.

Lam, Derek (2013) Time Series Modelling of Monthly WTI Crude Oil Returns. Masters thesis, Oxford University.

Lee, S Seirin and Baker, R E and Gaffney, E. A. and White, S M (2013) Optimal barrier zones for stopping the invasion of Aedes aegypti mosquitoes via transgenic or sterile insect techniques. Journal of Theoretical Ecology, 6 (4). pp. 427-442.

Lever, M and Dushek, O and van der Merwe, A and Lim, H-S and Maini, P. K. (2013) Systems biology of T-cell signalling. Immunology, 140 (1). p. 210.

Lewis, M A and Maini, P. K. and Petrovskii, S V (2013) Preface. In: Lecture Notes in Mathematics: Mathematical Biosciences Subseries, 2071. Springer, ix-xi.

Lloyd-Lewis, B and Fletcher, A G and Dale, T C and Byrne, H M (2013) Toward a quantitative understanding of the Wnt/beta-catenin pathway through simulation and experiment. Wires Systems Biology and Medicine, 5 (4). pp. 391-407.


Maclaren, O J and Sneyd, J. S. and Crampin, E J (2013) What do aquaporin knockout studies tell us about fluid transport in epithelia? Journal of Membrane Biology, 246 (4). pp. 297-305.

Maini, P. K. (2013) Turing's theory of morphogenesis. In: Alan Turing -- His Work and Impact. Elsevier, pp. 684-688.

Mantzaris, A V and Bassett, D S and Wymbs, N F and Estrada, E and Porter, M A and Mucha, P J and Grafton, S T (2013) Dynamic network centrality summarizes learning in the human brain. Journal of Complex Networks, 1 (1). pp. 83-92.

Markham, D C and Simpson, M J and Maini, P. K. and Gaffney, E. A. and Baker, R. E. (2013) Incorporating spatial correlations into multispecies mean-field models. Physical Review E, 88 . 052713-(9 pages).

Marston, J. O. and Sprittles, J. E. and Zhu, Y. and Li, E. Q. and Vakarelski, I. U. and Thoroddsen, S. T. (2013) Drop spreading and penetration into pre-wetted powders. Journal of Powder Technology . (Submitted)

Mirams, G R and Arthurs, C J and Bernabeu, M O and Bordas, R and Cooper, J and Corrias, A and Davit, Y. and Dunn, S J and Fletcher, A G and Harvey, D G and Marsh, M E and Osborne, J M and Pathmanathan, P. and Pitt-Francis, J and Southern, J. and Zemzemi, N and Gavaghan, D J (2013) Chaste: an open source C++ library for computational physiology and biology. PLOS Computational Biology, 9 . e1002970.

Monoyios, Michael (2013) Malliavin calculus method for asymptotic expansion of dual control problems. SIAM Journal on Financial Mathematics, 4 . pp. 884-915.

Moulton, D E and Lega, J (2013) Effect of disjoining in a thin film equation with non-uniform forcing. European Journal of Applied Mathematics, 24 (6). pp. 887-920.

Mukhopadhyay, H and Cordoba, S P and Maini, P. K. and van der Merwe, A and Dushek, O (2013) Systems model of T cell receptor proximal signaling reveals emergent ultrasensitivity. PLOS Computational Biology, 9 (3). e1003004-8 pages.

Murray, P J and Maini, P. K. and Baker, R. E. (2013) Modelling Oscillator synchronisation during vertebrate axis segmentation. In: Springer Proceedings in Mathematics. Pattern Formation in Morphogenesis, 15 . Springer-Verlag Berlin Heidelberg, Heidelberg, pp. 95-105. ISBN 978-3-642-20164-6

Murray, P J and Maini, P. K. and Baker, R. E. (2013) Modelling delta-notch perturbations during zebrafish somitogenesis. Developmental Biology, 373 (2). pp. 407-421.

März, T. (2013) A well-posedness framework for inpainting based on coherence transport. Foundations of Computational Mathematics . (Submitted)


Nakatsukasa, Yuji and Noferini, Vanni and Townsend, Alex (2013) Computing the common zeros of two bivariate functions via Bezout resultants. Technical Report. Unspecified. (Submitted)

Neukirch, S. and Goriely, A. and Olivier, T. (2013) Singular inextensible limit in the vibrations of post-buckled rods: analytical derivation and role of boundary conditions. Journal of Sound and Vibration . (Submitted)

Ngan, Kevin (2013) Application of the LCS Problem to High Frequency Financial Data. Masters thesis, Oxford University.


O'Keeffe, S.G. and Moulton, D. E. and Waters, S. L. and Goriely, A. (2013) Growth-induced axial buckling of a slender elastic filament embedded in an isotropic elastic matrix. International Journal of Nonlinear Mechanics, 56 . pp. 94-104.

O'Keeffe, S.G. and Moulton, D.E. and Waters, S.L. and Goriely, A. (2013) Growth-induced axial buckling of a slender elastic filament embedded in an isotropic elastic matrix. International Journal of Nonlinear Mechanics . (Submitted)


Paterson, C. and Wilson, S. K. and Duffy, B. R. (2013) Pinning, de-pinning and re-pinning of a slowly varying rivulet. European Journal of Mechanics B/Fluids . (Submitted)

Paterson, C. and Wilson, S.K. and Duffy, B.R. (2013) Rivulet flow round a horizontal cylinder subject to a
uniform surface shear stress.
Quarterly Journal of Mechanics and Applied Mathematics . (Submitted)

Pearson, John W. (2013) On the role of commutator arguments in the development of parameter-robust preconditioners for Stokes control problems. Technical Report. ETNA. (Submitted)

Pearson, John W. (2013) Preconditioned iterative methods for Navier-Stokes control problems. Technical Report. SIAM. (Submitted)

Pereira Simoes Matos, Goncalo (2013) Modelling Alternative Energy in the Electricity Market. Masters thesis, Oxford University.

Perfahl, H and Byrne, H. M. and Chen, T and Estrella, V and Alarcon, T. and Lapin, A and Gatenby, R. A. and Gillies, R. J. and Lloyd, M C and Maini, P. K. and Reuss, M and Owen, M. R. (2013) 3D Multiscale modelling of angiogenesis and vascular tumour growth. In: Micro and Nano Flow Systems Flow Systems for Bioanalysis. Bioanalysis, 2 . Springer, New York, pp. 29-48.

Pestana, J. (2013) On the eigenvalues and eigenvectors of nonsymmetric saddle point matrices preconditioned by block triangular matrices. SIAM Journal on Matrix Analysis and Applications . (Submitted)

Pestana, Jennifer and Wathen, A. J. (2013) Natural preconditioners for saddle point systems. Technical Report. Unspecified. (Submitted)

Pestana, Jennifer and Wathen, A. J. (2013) The antitriangular factorisation of saddle point matrices. Technical Report. Unspecified. (Submitted)


Rhebergen, Sander (2013) Well-balanced $r$-adaptive and moving mesh space-time discontinuous Galerkin method for the shallow water equations. Technical Report. Unspecified. (Submitted)

Rosser, G and Fletcher, A G and Maini, P. K. and Baker, R. E. (2013) The effect of sampling rate on observed statistics in a correlated random walk. The Journal of the Royal Society Interface, 10 (83). pp. 1742-5662.

Rosser, G and Fletcher, A G and Wilkinson, D A and de Beyer, J A and Yates, C A and Armitage, J P and Maini, P. K. and Baker, R. E. (2013) Novel methods for analysing bacterial tracks reveal persistence in rhodobacter sphaeroides. PLOs Computational Biology, 9 (10). e1003276-(18 pages).


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.

Schroll, R. D. and Adda-Bedia, M. and Cerda, E. and Huang, J. and Menon, N. and Russell, T. P. and Toga, K. B. and Vella, D. and Davidovitch, B. (2013) Capillary deformations of bendable films. Physical Review Letters . (Submitted)

Schumacher, L J and Woolley, T E and Baker, R E (2013) Noise-induced temporal dynamics in Turing systems. Physical Review E, 87 (4). 042719.

Scott, J G and Gerlee, P and Basanta, D and Fletcher, A G and Maini, P. K. and Anderson, A R A (2013) Mathematical modeling of the metastatic process. In: Experimental Metastasis: Modeling and Analysis. Springer, Dordrecht, pp. 189-208.

Seirin Lee, S and Baker, R E and Gaffney, E. A. and White, S M (2013) Optimal strategies for Aedes aegypti mosquito control via transgenic and sterile insect techniques: endemics and emerging outbreaks. Journal of Theoretical Biology, 331 (1). pp. 78-90.

Serknas, Dominykas (2013) Time Series Model for Forecasting Intraday Volatilities. Masters thesis, Oxford University.

Smears, Iain (2013) Nonoverlapping domain decomposition preconditioners for discontinuous Galerkin finite element methods in $H^2$-type norms. Technical Report. Unspecified. (Submitted)

Smears, Iain and Suli, Endre (2013) Discontinuous Galerkin finite element approximation of Hamilton-Jacobi-Bellman equations with Cordès coefficients. Technical Report. Unspecified. (Submitted)

Sotiris, A. and Prokopiou, S. A. and Byrne, H. M. and Jeffrey, M. R. and Robinson, R. S. and Mann, G. E. and Owen, M. R. (2013) Mathematical analysis of a model for the growth of the bovine corpus luteum. Journal of Mathematical Biology . (Submitted)

Spears, Trent (2013) On estimating the risk-neutral and real-world probability measures. Masters thesis, Oxford University.


Takacs, Stefan (2013) Efficient smoothers for all-at-once multigrid methods for Poisson and Stokes control problems. Technical Report. Unspecified. (Submitted)

Takacs, Stefan (2013) A robust all-at-once multigrid method for the Stokes control problem. Technical Report. Unspecified. (Submitted)

Takacs, Stefan (2013) A robust multigrid method for the time-dependent Stokes problem. Technical Report. Unspecified. (Submitted)

Tan, Vincent (2013) Utility-Based Hedging of Stochastic Income. Masters thesis, Oxford University.

Thiyagalingam, J. and Walton, S. and Duffy, B.R. and Trefethen, A. and Chen, M. (2013) Complexity plots. EuroVis . (Submitted)

Townsend, Alex and Trefethen, Lloyd N. (2013) Gaussian elimination as an iterative algorithm. Technical Report. SIAM. (Submitted)

Townsend, Alex and Trefethen, Lloyd N. (2013) An extension of Chebfun to two dimensions. Technical Report. SISC. (Submitted)

Trefethen, Lloyd N. and Weideman, J. A. C. (2013) The exponentially convergent trapezoidal rule. Technical Report. SIAM. (Submitted)

Tsai, S.S.H. and Griffiths, I.M. and Li, Z. and Kim, P. and Stone, H.A. (2013) Interfacial deflection and jetting of a paramagnetic particle-laden fluid: theory and experiment. Soft Matter . (Submitted)


Vaughan, JR., B. and Baker, R. E. and Kay, D. and Maini, P. K. (2013) A modified Oster-Murray-Harris mechanical model of morphogenesis. Siam Journal of Applied Mathematics, 73 (6). pp. 2124-2142.

Vincent, J P and Fletcher, A G and Baena-Lopez, L A (2013) Mechanisms and mechanics of cell competition in epithelia. Nature Review Molecular Cellular Biology, 14 (9). pp. 581-591.


Wagner, T. J. W. and Vella, D. (2013) Switch on, switch off: stiction in nanoelectromechanical switches. Nanotechnology . (Submitted)

Wallman, M. and Bueno-Orovio, A. and Rodriguez, B. (2013) Computational probabilistic quantification of pro-arrhythmic risk from scar and left-to-right heterogeneity in the human ventricles. In: Computing in Cardiology Conference. (Submitted)

Wathen, A. J. and Zhu, Shengxin (2013) On the spectral distribution of kernel matrices related to radial basis functions. Technical Report. Oxford preprint. (Submitted)


Xia, Yuan (2013) Multilevel Monte Carlo for jump processes. PhD thesis, University of Oxford.


Yates, C A and Baker, R E (2013) Isotropic model for cluster growth on a regular lattice. Physical Review E, 88 (2). 023304.

Yates, C A and Baker, R. E. (2013) The importance of the Voronoi domain partition for position-jump reaction-diffusion processes on non-uniform rectilinear lattices. Physical Review E, 88 (5). 05471.

Yates, C A and Klingbeil, G. (2013) Recycling random numbers in the stochastic simulation algorithm. Journal of Chemical Physics, 138 (9). 094103.

Yatim, Y. M. and Duffy, B. R. and Wilson, S. K. (2013) Travelling-wave similarity solutions for a steadily translating slender dry patch in a thin fluid film. Physics of Fluids . (Submitted)


Zhang, Xin (2013) Constructing Subordinated Di�usions Calibrated To A Finite Call Price Surface. Masters thesis, Oxford University.

Zheng, Xiaowei (2013) High frequency dynamics of order flow. Masters thesis, Oxford University.

Zhou, X. and Bueno-Orovio, A. and Orini, M. and Hanson, B. and Haywood, M. and Taggart, P. and Lambiase, P. and Burrage, K. and Rodriguez, B. (2013) Population of human ventricular cell models calibrated with in vivo measurements unravels ionic mechanisms of cardiac alternans. In: Computing in Cardiology Conference. (Submitted)

Zhu, S.-X. and Gu, T.-X. and Liu, X.-P. (2013) Minimizing synchronizations in sparse iterative solvers for distributed supercomputers. Computer & Mathematics with Applications . (Submitted)

Zubkov, V S and Breward, C J W and Gaffney, E A (2013) Meniscal fluid dynamics near Marx's line. Bulletin of Mathematical Biology, 75 (9). pp. 1524-1543. ISSN n/a

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