Recent Publications

Recent publications by members of the Applied and Computational Mathematics group.

2022

• Brolly, M., Maddison, J. R., Teckentrup, A. L. & Vanneste, J., Bayesian comparison of stochastic models of dispersion, Journal of Fluid Mechanics, to appear, 2022 article
• Offner, A. & Vanneste, J., Airborne lifetime of respiratory droplets, Physics of Fluids B 34(5), 2022 article
• Zygalakis, K. C., Higham, D. J. & Giovacchino, S. D., A Hierarchy of Network Models Giving Bistability Under Triadic Closure, Multiscale Modeling and Simulation: A SIAM Interdisciplinary Journal, to appear, 2022 article
• Higham, D. J. & De Kergorlay, H., Mean Field Analysis of Hypergraph Contagion Model, Siam Journal on Applied Mathematics, to appear, 2022 article
• Higham, D. J. & De Kergorlay, H., Disease Extinction for Susceptible-Infected-Susceptible Models on Dynamic Graphs and Hypergraphs, Chaos: An Interdisciplinary Journal of Nonlinear Science 32(8), 2022 article
• Olde Daalhuis, A. B., Exponentially-improved asymptotics and numerics for the (un)perturbed first Painlevé equation, Journal of Physics A: Mathematical and Theoretical 55(30), 2022 article
• Haji-Ali, A-L., Spence, J. & Teckentrup, A. L., Adaptive Multilevel Monte Carlo for Probabilities, Siam journal on numerical analysis, to appear, 2022 article
• Herliansyah, R., King, R. & King, S. E., Laplace Approximations for Capture-Recapture Models in the Presence of Individual Heterogeneity, Journal of Agricultural, Biological and Environmental Statistics, to appear, 2022 article
• Aduamoah, M., Goddard, B. D., Pearson, J. W. & Roden, J., PDE-Constrained Optimization Models and Pseudospectral Methods for Multiscale Particle Dynamics, Bit numerical mathematics, to appear, 2022 article
• Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium, Dissecting the Shared Genetic Architecture of Suicide Attempt, Psychiatric Disorders, and Known Risk Factors, Biological Psychiatry 91(3) 313-327, 2022 article
• Mak, J., Marshall, D. P., Madec, G. & Maddison, J. R., Acute sensitivity of global ocean circulation and heat 2 content to eddy energy dissipation time-scale, Geophysical Research Letters, to appear, 2022 article
• Lellep, M., Prexl, J., Eckhardt, B. & Linkmann, M., Interpreted machine learning in fluid dynamics: explaining relaminarisation events in wall-bounded shear flows, Journal of Fluid Mechanics 942, 2022 article
• Yang, R., Zhang, X., Reiter, P., Lohse, D., Shishkina, O. & Linkmann, M., Data-driven identification of the spatiotemporal structure of turbulent flows by streaming dynamic mode decomposition, GAMM Mitteilungen 45(1), 2022 article
• Calisto Leiva, E., Smyth, N. F. & ASSANTO, GAETANO., Optical isolation via direction-dependent soliton routing in birefringent soft matter, Optics Letters 47(11) 2782-2785, 2022 article
• Horikis, T., Frantzeskakis, D. J. & Smyth, N. F., Extended shallow water wave equations, Wave Motion 112, 2022 article
• Assanto, G., Marchant, T. & Smyth, N. F., Interactions of self-localized optical wavepackets in reorientational soft matter, Applied Sciences 12(5), 2022 article
• Buza, G., Page, J. & Kerswell, R. R., Weakly nonlinear analysis of the viscoelastic instability in channel flow for finite and vanishing Reynolds numbers, Journal of Fluid Mechanics 940, 2022 article

2021

• Vanneste, J. & R. Young, W., Stokes drift and its discontents, Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, to appear, 2021 article
• Vanneste, J., Coastal imbalance: generation of oceanic Kelvin waves by atmospheric perturbations, Journal of Fluid Mechanics, to appear, 2021 article
• Manger, S., Renaud, A. & Vanneste, J., An expectation-maximization algorithm for positron emission particle tracking, Review of Scientific Instruments, to appear, 2021 article
• Amini Kafiabad, H., Vanneste, J. & R. Young, W., Interaction of Near-Inertial Waves with an Anticyclonic Vortex, Journal of Physical Oceanography 51(6) 2035, 2021 article
• Vanneste, J., Vortex dynamics on a Möbius strip, Journal of Fluid Mechanics 923, 2021 article
• Savva, M., Amini Kafiabad, H. & Vanneste, J., Inertia-gravity-wave scattering by three-dimensional geostrophic turbulence, Journal of Fluid Mechanics, to appear, 2021 article
• Amini Kafiabad, H., Vanneste, J. & R. Young, W., Wave-averaged balance: a simple example, Journal of Fluid Mechanics, to appear, 2021 article
• Ayala-garcia, D., Curtis, A. & Branicki, M., Seismic Interferometry from Correlated Noise Sources, Remote Sensing 13(14), 2021 article
• Branicki, M. & Uda, K., Time-periodic measures, random periodic orbits, and the linear response for non-autonomous stochastic differential equations, Research in the Mathematical Sciences 8, 2021 article
• Branicki, M. & Uda, K., Lagrangian Uncertainty Quantification and Information Inequalities in Stochastic Flows, SIAM/ASA Journal on Uncertainty Quantification, to appear, 2021 article
• Gong, X., Higham, D. J. & Zygalakis, K. C., Directed Network Laplacians and Random Graph, Royal Society Open Science, to appear, 2021 article
• Higham, D. J. & De Kergorlay, H., Epidemics on Hypergraphs: Spectral Thresholds for Extinction, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, to appear, 2021 article
• Arrigo, F., Higham, D. J. & Noferini, V., A THEORY FOR BACKTRACK-DOWNWEIGHTED WALKS, SIAM Journal on Matrix Analysis and Applications, to appear, 2021 article
• Tudisco, F. & Higham, D. J., Node and Edge Eigenvector Centrality for Hypergraphs, Communications Physics, to appear, 2021 article
• Gilmour, C. & Higham, D. J., Modelling Burglary in Chicago using a Self-Exciting Point Process with Isotropic Triggering, European Journal of Applied Mathematics, to appear, 2021 article
• Higham, D. J., Higham, N. J. & Pranesh, S., Random Matrices Generating Large Growth in LU, SIAM Journal on Matrix Analysis and Applications 42(1) 185–201, 2021 article
• Zhou, C., Mackay, T. G. & Lakhtakia, A., Singular existence of a Dyakonov–Voigt surface wave: Proof, Results in Physics 24, 2021 article
• Todd, V., Williamson, L., Jiang, J., Cox, S., Todd, I. & Ruffert, M., Prediction of marine mammal auditory-impact risk from Acoustic Deterrent Devices used in Scottish aquaculture, Marine Pollution Bulletin 165, 2021 article
• Burke, J. & King, S. E., Edge Tracing using Gaussian Process Regression, IEEE Transactions on Image Processing, to appear, 2021 article
• Sanz-Serna, J. M. & Zygalakis, K. C., The connections between Lyapunov functions for some optimization algorithms and differential equations, Siam journal on numerical analysis 59(3) 1542-1565, 2021 article
• Sanz-Serna, J. M. & Zygalakis, K. C., Wasserstein distance estimates for the distributions of numerical approximations to ergodic stochastic differential equations, Journal of Machine Learning Research 22 1-37, 2021 article
• Goddard, B. D., Gooding, B., Pavliotis, G. A. & Short, H., Noisy bounded confidence models for opinion dynamics: the effect of boundary conditions on phase transitions, IMA Journal of Applied Mathematics, to appear, 2021 article
• Goddard, B. D., Hurst, T. & Ocone, R., Modelling inelastic granular media using Dynamical Density Functional Theory, Journal of Statistical Physics 183, 2021 article
• Leveque, S. & Pearson, J. W., PARAMETER-ROBUST PRECONDITIONING FOR OSEEN ITERATION APPLIED TO STATIONARY AND INSTATIONARY NAVIER-STOKES CONTROL PROBLEMS, SIAM Journal on Scientific Computing, to appear, 2021 article
• Leveque, S. & Pearson, J. W., Fast Iterative Solver for the Optimal Control of Time-Dependent PDEs with Crank-Nicolson Discretization in Time, Numerical Linear Algebra with Applications, to appear, 2021 article
• Leveque, S. & Pearson, J. W., Parameter-robust preconditioning for unsteady Stokes control problems, Proceedings in Applied Mathematics and Mechanics, to appear, 2021 article
• Bergamaschi, L., Gondzio, J., Martínez, Á., Pearson, J. W. & Pougkakiotis, S., A New Preconditioning Approachfor an Interior Point–Proximal Method of Multipliers for Linear and Convex Quadratic Programming, Numerical Linear Algebra with Applications, to appear, 2021 article
• Güttel, S. & Pearson, J. W., A spectral-in-time Newton-Krylov method for nonlinear PDE-constrained optimization, IMA Journal of Numerical Analysis, to appear, 2021 article
• Bergamaschi, L., Gondzio, J., Martínez, Á., Pearson, J. W. & Pougkakiotis, S., A New Preconditioning Approach for an Interior Point-Proximal Method of Multipliers for Linear and Convex Quadratic Programming, Numerical Linear Algebra with Applications 28, to appear, 2021 article
• Bajars, J., Eilbeck, J. C. & Leimkuhler, B., Two-dimensional mobile breather scattering in a hexagonal crystal lattice, Physical Review E 103(2), 2021 article
• Miao, Z., Popovic, N. & Zacharis, T., Geometric analysis of a two-body problem with quick loss of mass, Nonlinear dynamics, to appear, 2021 article
• Smyth, N. F. & Nguyen, L. T. K., Dispersive shock waves for the Boussinesq Benjamin-Ono equation, Studies in Applied Mathematics, to appear, 2021 article
• Grimshaw, R. H. J., Smyth, N. F. & Stepanyants, Y. A., Interaction of internal solitary waves with long periodic waves within the rotation modified Benjamin–Ono equation, Physica D: Nonlinear Phenomena 419, 2021 article
• Veerman, F., Popovic, N. & Marr, C., Parameter inference with analytical propagators for stochastic models of autoregulated gene expression, International Journal of Nonlinear Sciences and Numerical Simulation, to appear, 2021 article
• Koziol, C. P., Todd, J. A., Goldberg, D. N. & Maddison, J. R., fenics_ice 1.0: A framework for quantifying initialisation uncertainty for time-dependent ice-sheet models, Geoscientific Model Development, to appear, 2021 article
• Lellep, M., Linkmann, M., Eckhardt, B. & Morozov, A., Purely elastic linear instabilities in parallel shear flows with free-slip boundary conditions, Journal of Fluid Mechanics 928(R3) 1-11, 2021 article
• Yang, Y., Linkmann, M., Biferale, L. & Wan, M., Effects of Forcing Mechanisms on the Multiscale Properties of Magnetohydrodynamics, Astrophysical Journal 909, 2021 article
• Horikis, T., Frantzeskakis, D. J., Marchant, T. R. & Smyth, N. F., Higher-dimensional extended shallow water equations and resonant soliton radiation, Physical Review Fluids 6(10), 2021 article
• Assanto, G., Khan, C. & Smyth, N. F., Multihump thermo-reorientational solitary waves in nematic liquid crystals: Modulation theory solutions, Physical Review A 104(1), 2021 article
• Baqer, S., Frantzeskakis, D. J., Horikis, T., Houdeville, C., Marchant, T. R. & Smyth, N. F., Nematic dispersive shock waves from nonlocal to local, Applied Sciences 11(11), 2021 article
• Vargas - Magana, R. M., Marchant, T. R. & Smyth, N. F., Numerical and analytical study of undular bores governed by the full water wave equations and bi-directional Whitham-Boussinesq equations, Physics of Fluids 33(6), 2021 article
• Page, J., Brenner, M. P. & Kerswell, R., Revealing the state space of turbulence using machine learning, Physical Review Fluids 6(3), 2021 article
• Kaklamanos, P., Popovic, N. & Uldall Kristiansen, K., Bifurcations of mixed-mode oscillations in three-timescale systems: an extended prototypical example, Chaos, to appear, 2021 article

2020

• Farah, Y., Loghin, D., Tzella, A. & Vanneste, J., Diffusion in arrays of obstacles: beyond homogenisation, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences 476, 2020 article
• Gilbert, A. D. & Vanneste, J., A geometric look at MHD and the Braginsky dynamo, Geophysical and astrophysical fluid dynamics, to appear, 2020 article
• Higgins, C., Vanneste, J. & van den Bremer, T. S., Unsteady Ekman--Stokes dynamics: implications for surface-wave induced drift of floating marine litter, Geophysical Research Letters, to appear, 2020 article
• Renaud, A. & Vanneste, J., Dispersion of inertial particles in cellular flows in the small-Stokes, large-Péclet regime, Journal of Fluid Mechanics 903, 2020 article
• Higgins, C., Van Den Bremer, T. & Vanneste, J., Lagrangian transport by deep-water surface gravity wavepackets: effects of directional spreading and stratification, Journal of Fluid Mechanics 883, 2020 article
• Blanchard, P., Higham, D. J. & Higham, N. J., Accurately Computing the Log-Sum-Exp and Softmax Functions, IMA Journal of Numerical Analysis, to appear, 2020 article
• Arrigo, F., Higham, D. & Tudisco, F., A framework for second-order eigenvector centralities and clustering coefficients, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences 476(2236), 2020 article
• Mantzaris, A. & Higham, D., A Network Model for Polarization of Political Opinion, Chaos 30, 2020 article
• Arrigo, F., Higham, D. & Noferini, V., Beyond non-backtracking: Non-cycling network centrality measures, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences 476(2235), 2020 article
• Nemes, G. & Olde Daalhuis, A., LARGE-PARAMETER ASYMPTOTIC EXPANSIONS FOR THE LEGENDRE AND ALLIED FUNCTIONS, SIAM Journal on Mathematical Analysis 52(1) 437-470, 2020 article
• Mackay, T. G. & Lakhtakia, A., Multiple Rayleigh waves guided by the planar surface of a continuously twisted structurally chiral material, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences 476(2239), 2020 article
• Teckentrup, A. L., Convergence of Gaussian Process Regression with Estimated Hyper-parameters and Applications in Bayesian Inverse Problems, SIAM/ASA Journal on Uncertainty Quantification 8(4) 1310–1337, 2020 article
• Todd, V., Williamson, L., Jiang, J., Cox, S., Todd, I. & Ruffert, M., Proximate underwater soundscape of a North Sea offshore petroleum-exploration jack-up drilling-rig in the Dogger Bank, The Journal of the Acoustical Society of America 148(6) 3971–3979, 2020 article
• Ruffert, M., Todd, V. & Todd, I., Presentation of binning-based inter-click interval data from passive acoustic monitoring of free-ranging harbour porpoises (Phocoena Phocoena), International Journal of Acoustics and Vibration 25(2) 209-218, 2020 article
• Hansen, J., Mitchard, E. & King, S. E., Assessing Forest/Non-Forest Separability Using Sentinel-1 C-Band Synthetic Aperture Radar, Remote Sensing, to appear, 2020 article
• Yates, C. A., George, A., Jordana, A., Smith, C. A., Duncan, A. B. & Zygalakis, K. C., The blending region hybrid framework for the simulation of stochastic reaction-diffusion processes, Journal of the Royal Society, Interface 17(171), 2020 article
• Eftekhari, A., Vandereycken, B., Vilmart, G. & Zygalakis, K. C., Explicit Stabilised Gradient Descent for Faster Strongly Convex Optimisation, Bit numerical mathematics, to appear, 2020 article
• Sanz-Serna, J. M. & Zygalakis, K. C., Contractivity of Runge-Kutta methods for convex gradient systems, Siam journal on numerical analysis 58(4) 2079–2092, 2020 article
• Vargas Mieles, L., Pereyra, M. & Zygalakis, K. C., Accelerating proximal Markov chain Monte Carlo by using an explicit stabilised method, Siam journal on imaging sciences 13(2), 2020 article
• Zygalakis, K., Vollmer, S. J., Szpruch, L., Giles, M. B. & Majka, M., Multilevel Monte Carlo methods for the approximation of invariant measures of stochastic differential equations, Statistics and Computing 30 507–524, 2020 article
• Goddard, B. D., Hurst, T. & Wilkinson, M., A derivation of the Liouville equation for hard particle dynamics with non-conservative interactions, Proceedings of the Royal Society of Edinburgh Section A: Mathematics, to appear, 2020 article
• Goddard, B. D., Mills-Williams, R. & Sun, J., The Singular Hydrodynamic Interactions Between Two Spheres In Stokes Flow, Physics of Fluids 32(6), 2020 article
• Turowski, T., Petfalski, E., Goddard, B. D., French, S. L., Helwak, A. & Tollervey, D., Nascent transcript folding plays a major role in determining RNA polymerase elongation rates, Molecular Cell 79(3) 488-503.e11, 2020 article
• Pougkakiotis, S., Pearson, J. W., Leveque, S. & Gondzio, J., FAST SOLUTION METHODS FOR CONVEX QUADRATIC OPTIMIZATION OF FRACTIONAL DIFFERENTIAL EQUATIONS, SIAM Journal on Matrix Analysis and Applications 41(3) 1443–1476, 2020 article
• Pearson, J. W. & Pestana, J., Preconditioners for Krylov subspace methods: An overview, GAMM-Reports 43(4), 2020 article
• Pearson, J., Porcelli, M. & Stoll, M., Interior Point Methods and Preconditioning for PDE-Constrained Optimization Problems Involving Sparsity Terms, Numerical Linear Algebra with Applications 27(2), 2020 article
• Liu, J. & Pearson, J. W., Parameter-robust preconditioning for the optimal control of the wave equation, Numerical Algorithms 1171–1203, to appear, 2020 article
• Heber, F., Trstanova, Z. & Leimkuhler, B., Posterior sampling strategies based on discretized stochastic differential equations for machine learning applications, Journal of Machine Learning Research 21 1-33, 2020 article
• Leimkuhler, B., Sachs, M. & Stoltz, G., Hypocoercivity properties of adaptive Langevin dynamics, Siam Journal on Applied Mathematics 80(3) 1197–1222, 2020 article
• Trstanova, Z., Leimkuhler, B. & Lelievre, T., Local and Global Perspectives on Diffusion Maps in the Analysis of Molecular Systems, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences 476(2233), 2020 article
• Heber, F., Trstanova, Z. & Leimkuhler, B., TATi-Thermodynamic Analytics ToolkIt: TensorFlow-based software for posterior sampling in machine learning applications, Journal of Machine Learning Research, to appear, 2020 article
• Phipps, F., Khochfar, S., Varri, A. L. & Vecchia, C. D., The First Billion Years Project: Finding Infant Globular Clusters at z=6, Astronomy and Astrophysics 641, 2020 article
• Heggie, D. C., Breen, P. G. & Varri, A. L., l=1: Weinberg's weakly damped mode in an N-body model of a spherical stellar system, Monthly Notices of the Royal Astronomical Society 492(4) 6019-6026, 2020 article
• Filatova, T., Popovic, N. & Grima, R., Statistics of nascent and mature RNA fluctuations in a stochastic model of transcriptional initiation, elongation, pausing, and termination, Bulletin of Mathematical Biology 83(3), 2020 article
• Miao, Z., Popovic, N. & Szmolyan, P., OSCILLATIONS IN A CAMP SIGNALING MODEL FOR CELL AGGREGATION { A GEOMETRIC ANALYSIS, Journal of mathematical analysis and applications 483(1), 2020 article
• Cheek, D. & Antal, T., Genetic composition of an exponentially growing cell population, Stochastic processes and their applications 130(11) 6580-6624, 2020 article
• Linkmann, M., Hohmann, M. & Eckhardt, B., Nonuniversal transition to condensate formation in two-dimensional turbulence, Journal of Fluid Mechanics 892, 2020 article
• Linkmann, M., Marchetti, M. C., Boffetta, G. & Eckhardt, B., Condensate formation and multiscale dynamics in two-dimensional active suspensions, Physical Review E 101(2), 2020 article
• Lellep, M., Prexl, J., Linkmann, M. & Eckhardt, B., Using Machine Learning to predict extreme events in the Hénon map, Chaos 30(1), 2020 article
• Assanto, G. & Smyth, N. F., Spin-optical solitons in liquid crystals, Physical Review A 102(3), 2020 article
• Baqer, S. & Smyth, N., Modulation theory and resonant regimes for dispersive shock waves in nematic liquid crystals, Physica D: Nonlinear Phenomena 403, 2020 article
• Page, J., Dubief, Y. & Kerswell, R., Exact travelling wave solutions in viscoelastic channel flow, Physical Review Letters 125(15), 2020 article
• Page, J. & Kerswell, R. R., Searching turbulence for periodic orbits with dynamic mode decomposition, Journal of Fluid Mechanics 886, 2020 article
• Moyano, A., Lustig, G., Rodel, H. E., Antal, T. & Sigal, A., Interference with HIV infection of the first cell is essential for viral clearance at sub-optimal levels of drug inhibition, PLoS Computational Biology, to appear, 2020 article
• Linkmann, M., Knierim, F., Zammert, S. & Eckhardt, B., Linear feedback control of invariant solutions in channel flow, Journal of Fluid Mechanics 900, 2020 article
• Parker, J. P. & Page, J., Koopman analysis of isolated fronts and solitons, Siam Journal on Applied Dynamical Systems 19(4) 2803-2828, 2020 article