Source: https://publications.computationalscience.nl/author/aghoekstra/
Timestamp: 2019-04-25 06:42:04+00:00

Document:
S. Alowayyed, T. Piontek, J. L. Suter, O. Hoenen, D. Groen, O. Luk, B. Bosak, P. Kopta, K. Kurowski, O. Perks, K. Brabazon, V. Jancauskas, D. Coster, P. V. Coveney, and A. G. Hoekstra. Patterns for High Performance Multiscale Computing. Future Generation Computer Systems 91, pp. 335-346.
A. Nikishova, L. Veen, P. Zun, and A. G. Hoekstra. Semi-intrusive multiscale metamodelling uncertainty quantification with application to a model of in-stent restenosis. Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences 377(2142), 2018154.
S. Alowayyed, G. Závodszky, V. Azizi, and A. G. Hoekstra. Load balancing of parallel cell-based blood flow simulations. Journal of Computational Science 24, pp. 1-7.
R. Quax, G. Chliamovitch, A. Dupuis, J.-L. Falcone, B. Chopard, A. G. Hoekstra, and P. M. A. Sloot. Information processing features can detect behavioral regimes of dynamical systems. Complexity 2018, 6047846.
Anna Nikishova, Lourens Veen, Pavel Zun, and Alfons G. Hoekstra. Uncertainty Quantification of a Multiscale Model for In-Stent Restenosis. Cardiovascular Engineering and Technology 9(4), pp. 761-774.
E. Lorenz, V. Sivadasan, D. Bonn, and A. G. Hoekstra. Combined Lattice–Boltzmann and rigid-body method for simulations of shear-thickening dense suspensions of hard particles. Computers and Fluids 172, pp. 474-482.
D. Groen, B. Bosak, V. Krzhizhanovskaya, A. Hoekstra, and P. Koumoutsakos. Multiscale Modelling and Simulation, 14th International Workshop. Procedia Computer Science 108, pp. 1811-1812.
A. Nikishova, A. Kalyuzhnaya, A. Boukhanovsky, and A. Hoekstra. Uncertainty quantification and sensitivity analysis applied to the wind wave model SWAN. Environmental Modelling & Software 95, pp. 344-357.
S. Alowayyed, D. Groen, P. V. Coveney, and A. G. Hoekstra. Multiscale computing in the exascale era. Journal of Computational Science 22, pp. 15-25.
G. Závodszky, B. van Rooij, V. Azizi, and A. Hoekstra. Cellular Level In-silico Modeling of Blood Rheology with An Improved Material Model for Red Blood Cells. Frontiers in Physiology 8, 563.
G. Závodszky, B. van Rooij, V. Azizi, S. Alowayyed, and A. Hoekstra. Hemocell: a high-performance microscopic cellular library. Procedia Computer Science 108, pp. 159-165.
L. Mountrakis, E. Lorenz, and A. G. Hoekstra. Revisiting the use of the immersed-boundary lattice-Boltzmann method for simulations of suspended particles. Physical Review E 96(1), 013302.
B. Chopard, D. Ribeiro de Sousa, J. Lätt, L. Mountrakis, F. Dubois, C. Yourassowsky, P. Van Antwerpen, O. Eker, L. Vanhamme, D. Perez-Morga, G. Courbebaisse, E. Lorenz, A. G. Hoekstra, and K. Zouaoui Boudjeltia. A physical description of the adhesion and aggregation of platelets. Royal Society Open Science 4, 170219.
P. S. Zun, T. Anikina, A. I. Svitenkov, and A. G. Hoekstra. A Comparison of Fully-Coupled 3D In-Stent Restenosis Simulations to In-vivo Data. Frontiers in Physiology 8, 284.
D. Groen, V. Krzhizhanovskaya, B. Bosak, T. Scheibe, and A. Hoekstra. Multiscale modelling and simulation, 13th international workshop. Procedia Computer Science 80, pp. 1242-1243.
L. Mountrakis, E. Lorenz, and A. G. Hoekstra. Scaling of shear-induced diffusion and clustering in a blood-like suspension. Europhysics Letters 114(1), 14002.
O. Har-Shemesh, R. Quax, B. Miñano, A. G. Hoekstra, and P. M. A. Sloot. Nonparametric estimation of Fisher information from real data. Physical Review E 93(2), 023301.
O. Har-Shemesh, R. Quax, A. G. Hoekstra, and P. M. A. Sloot. Information geometric analysis of phase transitions in complex patterns: the case of the Gray-Scott reaction-diffusion model. Journal of Statistical Mechanics : Theory and Experiment 2016(4), 043301.
A. Mizeranschi, D. Groen, J. Borgdorff, A. G. Hoekstra, B. Chopard, and W. Dubitzky. Anatomy and Physiology of Multiscale Modeling and Simulation in Systems Medicine. In: Systems Medicine. ISBN 9781493932825. pp. 375-404.
H. Tahir, I. Niculescu, C. Bona-Casas, R. M. H. Merks, and A. G. Hoekstra. An in silico study on the role of smooth muscle cell migration in neointimal formation after coronary stenting. Journal of the Royal Society Interface 12(108), 20150358.
L. Mountrakis, E. Lorenz, O. Malaspinas, S. Alowayyed, B. Chopard, and A. G. Hoekstra. Parallel performance of an IB-LBM suspension simulation framework. Journal of Computational Science 9, pp. 45-50.
V. V. Krzhizhanovskaya, D. Groen, B. Bosak, and A. G. Hoekstra. Multiscale Modelling and Simulation Workshop: 12 Years of Inspiration. Procedia Computer Science 51, pp. 1082-1087.
A. I. Svitenkov, S. A. Chivilikhin, A. G. Hoekstra, and A. V. Boukhanovsky. Fluid Simulations with Atomistic Resolution: Multiscale Model with Account of Nonlocal Momentum Transfer. Procedia Computer Science 51, pp. 1108-1117.
P. S. Zun and A. G. Hoekstra. On the Possible Interaction Mechanism between Collateral Vessels and Restenosis. Procedia Computer Science 66, pp. 412-418.
C. Bona-Casas, H. Tahir, J. Borgdorff, and A. G. Hoekstra. A 3D Multiscale In-Stent Restenosis Model: A Milestone For The Next Generation of In-stent Restenosis Modelling. In: Virtual Physiological Human 2014.
J. Borgdorff, M. Mamonski, B. Bosak, K. Kurowski, M. Ben Belgacem, B. Chopard, D. Groen, P. V. Coveney, and A. G. Hoekstra. Distributed multiscale computing with MUSCLE 2, the Multiscale Coupling Library and Environment. Journal of Computational Science 5(5), pp. 719-731.
H. Tahir, I. Niculescu, R. Merks, and A. G. Hoekstra. A cellular Potts model of a stented arterial vessel to study the role of initial smooth muscle cells migration in neointimal development. In: Virtual Physiological Human 2014.
B. Chopard, J. Borgdorff, and A. G. Hoekstra. A framework for multi-scale modelling. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 2013037813.
C. M. Amatruda, C. Bona Casas, B. K. Keller, H. Tahir, G. Dubini, A. Hoekstra, D. R. Hose, P. Lawford, F. Migliavacca, A. J. Narracott, and J. Gunn. From histology and imaging data to models for in-stent restenosis. The international journal of artificial organs 37(10), pp. 786-800.
S. Karabasov, D. Nerukh, A. Hoekstra, B. Chopard, and P. V. Coveney. Multiscale modelling: approaches and challenges. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 20130390.
L. Mountrakis, E. Lorenz, and A. G. Hoekstra. Validation of an efficient two-dimensional model for dense suspensions of red blood cells. International Journal of Modern Physics C 25(12), 1441005.
H. Tahir, C. Bona-Casas, A. J. Narracott, J. Iqbal, J. Gunn, P. Lawford, and A. G. Hoekstra. Endothelial repair process and its relevance to longitudinal neointimal tissue patterns: Comparing histology with in silico modelling. Journal of the Royal Society Interface 11(94), 20140022.
A. Hoekstra, B. Chopard, and P. Lawford. Multi-Scale Modelling and Simulation. In: Computational biomedicine: modelling the human body. ISBN 9780199658183. pp. 138-160.
J. Borgdorff, M. Ben Belgacem, C. Bona-Casas, L. Fazendeiro, D. Groen, O. Hoenen, A. Mizeranschi, J. L. Sutter, D. Coster, P. V. Coveney, W. Dubitzky, A. G. Hoekstra, P. Strand, and B. Chopard. Performance of distributed multiscale simulations. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 20130407.
A. Hoekstra, B. Chopard, and P. Coveney. Multiscale modelling and simulation: a position paper. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 20130377.
C. Bona-Casas, J. Borgdorff, H. Tahir, and A. G. Hoekstra. An off-lattice 3D model for in-stent restenosis.
C. Bona-Casas, J. Borgdorff, H. Tahir, and A. G. Hoekstra. First results on a 3D model for in-stent restenosis.
H. Tahir, C. Bona-Casas, and A. G. Hoekstra. Modelling in-stent restenosis: morphological differences in the tissue patterns based on the origin of endothelium recovery.
H. Tahir, C. Bona-Casas, and A. G. Hoekstra. In-stent restenosis patterns based on the origin of endothelium recovery.
H. Tahir, C. Bona-Casas, and A. G. Hoekstra. Modelling the Effect of a Functional Endothelium on the Development of In-Stent Restenosis. PLoS One 8(6), e66138.
D. Groen, J. Borgdorff, C. Bona-Casas, J. Hetherington, R. W. Nash, S. J. Zasada, I. Saverchenko, M. Mamonski, K. Kurowski, M. O. Bernabeu, A. G. Hoekstra, and P. V. Coveney. Flexible composition and execution of high performance, high fidelity multiscale biomedical simulations. Interface Focus 3(2), 20120087.
L. Mountrakis, E. Lorenz, and A. G. Hoekstra. Where do the platelets go? A simulation study of fully resolved blood flow through aneurysmal vessels. Interface Focus 3(2), p. 20120089.
J. Borgdorff, J.-L. Falcone, E. Lorenz, C. Bona-Casas, B. Chopard, and A. G. Hoekstra. Foundations of distributed multiscale computing: formalization, specification, and analysis. Journal of Parallel and Distributed Computing 73(4), pp. 465-483.
J. Borgdorff, M. Mamonski, B. Bosak, D. Groen, M. Ben Belgacem, K. Kurowski, and A. G. Hoekstra. Multiscale Computing with the Multiscale Modeling Library and Runtime Environment. Procedia Computer Science 18, pp. 1097-1105.
J. Borgdorff, D. Groen, S. Ferlin, I. Saverchenko, J. Suter, A. G. Hoekstra, and P. V. Coveney. Multiscale Simulations on Distributed European e-Infrastructures. Inside 10(1), pp. 72-77.
J. Borgdorff, C. Bona-Casas, M. Mamonski, K. Kurowski, T. Piontek, B. Bosak, K. Rycerz, E. Ciepiela, T. Gubala, D. Harezlak, M. Bubak, E. Lorenz, and A. G. Hoekstra. A distributed multiscale computation of a tightly coupled model using the Multiscale Modeling Language. Procedia Computer Science 9, pp. 596-605.
B. Chopard, J.-L. Falcone, A. G. Hoekstra, and J. Borgdorff. A framework for multiscale and multiscience modeling and numerical simulations. In: Unconventional Computation. ISBN 9783642213403. pp. 2-8.
H. Tahir, A. G. Hoekstra, E. Lorenz, P. V. Lawford, D. R. Hose, J. Gunn, and D. J. W. Evans. Multi-scale simulations of the dynamics of in-stent restenosis: impact of stent deployment and design. Interface Focus 1(3), pp. 365-373.
V. P. Maltsev, A. G. Hoekstra, and M. A. Yurkin. Optics of white blood cells: optical models, simulations, and experiments. In: Advanced optical flow cytometry: methods and disease diagnoses. ISBN 9783527409341. pp. 63-93.
S. Murtaza, A. G. Hoekstra, and P. M. A. Sloot. Cellular automata simulations on a FPGA cluster. International Journal of High Performance Computing Applications 25(2), pp. 193-204.
L. Naumov, A. Hoekstra, and P. Sloot. Cellular automata models of tumour natural shrinkage. Physica A : Statistical Mechanics and its Applications 390(12), pp. 2283-2290.
M. A. Yurkin and A. G. Hoekstra. The discrete-dipole-approximation code ADDA: capabilities and known limitations. Journal of Quantitative Spectroscopy & Radiative Transfer 112(13), pp. 2234-2247.
J. Borgdorff, J.-L. Falcone, E. Lorenz, B. Chopard, and A. G. Hoekstra. A principled approach to distributed multiscale computing, from formalization to execution. In: Workshop Proceedings, 7th IEEE International Conference on eScience. ISBN 9781467300261. pp. 97-104.
J. Bernsdorf, G. Berti, B. Chopard, J. Hegewald, M. Krafczyk, D. Wang, E. Lorenz, and A. Hoekstra. Towards distributed multiscale simulation of biological processes. In: The Seventh IEEE International Conference on e-Science. Workshops: eScienceW 2011: proceedings: Stockholm, Sweden, 5-8 December 2011. ISBN 9781467300261. pp. 89-96.
E. Lorenz and A. G. Hoekstra. Heterogeneous multiscale simulations of suspension flow. Multiscale Modeling & Simulation 9(4), pp. 1301-1326.
L. Naumov, A. Hoekstra, and P. Sloot. The influence of mitoses rate on growth dynamics of a cellular automata model of tumour growth. Procedia Computer Science 1, pp. 971-978.
A. G. Hoekstra, A. Caiazzo, E. Lorenz, J.-L. Falcone, and B. Chopard. Complex Automata: Multi-scale Modeling with Coupled Cellular Automata. In: Simulating complex systems by cellular automata. ISBN 9783642122026. pp. 29-57.
M. A. Yurkin, O. M. Yurkina, and A. G. Hoekstra. Features and capabilities of the discrete dipole approximation code ADDA. In: NATO ASI on Special Detection Technique (Polarimetry) and Remote Sensing. p. 119.
A. G. Hoekstra, J. Kroc, and P. M. A. Sloot. Simulating complex systems by cellular automata. ISBN 9783642122026.
A. G. Hoekstra, P. Lawford, and R. Hose. Modelling and simulating in-stent restenosis with complex automata. In: Conference abstracts VPH 2010, 1st Virtual Physiological Human Conference. pp. 222-224.
A. G. Hoekstra. Multiscale coupling of a Lattice Boltzmann simulation of blood flow to cell- and tissue-level processes: the case of in-stent restenosis. In: Proceedings of the V European Conference on Computational Fluid Dynamics (ECCOMAS CFD 2010), Lisbon, Portugal.
M. A. Yurkin, D. de Kanter, and A. G. Hoekstra. Accuracy of the discrete dipole approximation for simulation of optical properties of gold nanoparticles. Journal of Nanophotonics 4(1), p. 041585.
A. G. Hoekstra, J. Kroc, and P. M. A. Sloot. Introduction to modeling of complex systems using cellular automata. In: Simulating complex systems by cellular automata. ISBN 9783642122026. pp. 1-16.
M. A. Yurkin, D. de Kanter, and A. G. Hoekstra. Accuracy of the discrete dipole approximation for gold nanoparticles. In: Abstracts of NATO ASI on Special Detection Technique (Polarimetry) and Remote Sensing: 12-25 September 2010, Kyiv, Ukraine. p. 118.
P. M. A. Sloot and A. G. Hoekstra. Multi-scale modelling in computational biomedicine. Briefings in Bioinformatics 11(1), pp. 142-152.
G. J. Streekstra, J. G. G. Dobbe, and A. G. Hoekstra. Quantification of the fraction poorly deformable red blood cells using ektacytometry. Optics Express 18(13), pp. 14173-14182.
J.-L. Falcone, B. Chopard, and A. Hoekstra. MML: towards a Multiscale Modeling Language. Procedia Computer Science 1, pp. 819-826.
E. van der Pol, A. G. Hoekstra, A. Sturk, C. Otto, T. G. van Leeuwen, and R. Nieuwland. Optical and non-optical methods for detection and characterization of microparticles and exosomes. Journal of Thrombosis and Haemostasis 8(12), pp. 2596-2607.
A. G. Hoekstra and P. Coveney. Towards distributed multiscale computing for the VPH. In: Conference abstracts VPH 2010, 1st Virtual Physiological Human Conference. pp. 198-200.
M. A. Yurkin, M. Min, and A. G. Hoekstra. Application of the discrete dipole approximation to very large refractive indices: Filtered coupled dipoles revived. Physical Review E 82(3), p. 036703.
J. B. W. Geerdink and A. G. Hoekstra. Comparing Entropic and Multiple Relaxation Times Lattice Boltzmann Methods for blood flow simulations. International Journal of Modern Physics C 20(5), pp. 721-733.
D. J. W. Evans, D. Walker, J. Gunn, M. Krafczyk, B. Chopard, J. Bernsdorf, A. G. Hoekstra, D. R. Hose, and P. V. Lawford. COAST: Multi-scale Simulation of Restenosis. In: Bioengineering 2009. p. 122.
E. Lorenz, A. G. Hoekstra, and A. Caiazzo. Lees-Edwards boundary conditions for lattice Boltzmann suspension simulations. Physical Review E 79(3), p. 036706.
D. I. Strokotov, M. A. Yurkin, K. V. Gilev, D. R. van Bockstaele, A. G. Hoekstra, N. B. Rubtsov, and V. P. Maltsev. Is there a difference between T- and B-lymphocyte morphology?. Journal of Biomedical Optics 14(6), p. 064036.
L. Axner, A. G. Hoekstra, A. Jeays, P. Lawford, R. Hose, and P. M. A. Sloot. Simulations of time harmonic blood flow in the Mesenteric artery: comparing finite element and lattice Boltzmann methods. BioMedical Engineering OnLine 8, p. 23.
S. Murtaza, A. G. Hoekstra, and P. M. A. Sloot. Compute bound and I/O bound Cellular Automata simulations on FPGA logic. ACM Transactions on Reconfigurable Technology and Systems 1(4), p. 23.
E. Lorenz, A. Caiazzo, and A. G. Hoekstra. Corrected momentum exchange method for lattice Boltzmann simulations of suspension flow. Physical Review E 79(3), p. 036705.
A. Caiazzo, J.-L. Falcone, B. Chopard, and A. G. Hoekstra. Asymptotic analysis of Complex Automata models for reaction-diffusion systems. Applied Numerical Mathematics 59(8), pp. 2023-2034.
B. Chopard, J.-L. Falcone, R. Razakarinina, A. G. Hoekstra, and A. Caiazzo. On the collision-propagation and gather-update formulations of a Cellular Automata rule. In: Cellular Automata, 8th International Conference on Cellular Automata for Reseach and Industry, ACRI 2008. ISBN 978-3-540-79991-7. Lecture Notes in Computer Science 5191, pp. 144-151.
A. G. Hoekstra. Book review: Optical Polarization in Biomedical Applications, V.V. Tuchin, L.V. Wang, D.A. Zimnyakov. Journal of Quantitative Spectroscopy \& Radiative Transfer 109, pp. 531-531.
A. G. Hoekstra, S. F. Portegies Zwart, M. T. Bubak, and P. M. A. Sloot. Towards Distributed Petascale Computing. In: Petascale Computing: Algorithms and Applications. ISBN 978-1-58488-909-0. pp. 147-164.
V. V. Krzhizhanovskaya and A. G. Hoekstra. Special Issue on Simulation of Multiphysics Multiscale Systems. International Journal for Multiscale Computational Engineering 6(1).
D. J. W. Evans, A. G. Hoekstra, J. Gunn, D. Walker, D. R. Hose, R. H. Smallwood, B. Chopard, M. Krafczyk, J. M. Bernsdorf, and P. V. Lawford. Multiscale Modelling: Application of the Complex Automata Simulation Technique (COAST). In: Proceedings of the European Biomechanics Society conference 2008.
B. Chopard, J.-L. Falcone, R. Razakanirina, A. Hoekstra, and A. Caiazzo. On the collision-propagation and gather-update formulations of a cellular automata rule. Lecture Notes in Computer Science 5191, pp. 144-151.
S. Murtaza, A. G. Hoekstra, and P. M. A. Sloot. Floating point based Cellular Automata simulations using a dual FPGA-enabled system. In: 2008 Second International Workshop on High-Performance Reconfigurable Computing Technology and Applications (HPRCTA): proceedings: held in conjunction with SC 08, Austin, TX, November 17, 2008. ISBN 9781424428267.
A. V. Chernyshev, P. A. Tarasov, K. A. Semianov, V. M. Nekrasov, A. G. Hoekstra, and V. P. Maltsev. Erythrocyte lysis in isotonic solution of ammonium chloride: Theoretical modelling and experimental verification. Journal of Theoretical Biology 251(1), pp. 93-107.
A. Caiazzo, J. L. Falcone, B. Chopard, and A. G. Hoekstra. Error investigations in complex automata models for reaction-diffusion systems. Lecture Notes in Computer Science 5191, pp. 260-267.
M. A. Yurkin, M. Min, and A. G. Hoekstra. Application of the discrete dipole approximation to extreme refractive indices: Filtered coupled dipoles revived. In: 11th Electromagnetic & Light Scattering Conference: Extended abstracts: 7-12 September 2008, de Havilland Campus, University of Hertfordshire. pp. 109-112.
A. G. Hoekstra, J.-L. Falcone, A. Caiazzo, and B. Chopard. Multi-scale modeling with cellular automata: The complex automata approach. Lecture Notes in Computer Science 5191, pp. 192-199.
M. A. Yurkin, D. de Kanter, and A. G. Hoekstra. Study of light scattering by a granulated coated sphere - a model of granulated blood cells. In: 11th Electromagnetic & Light Scattering Conference: Extended abstracts: 7-12 September 2008, de Havilland Campus, University of Hertfordshire. pp. 299-302.
A. Caiazzo, J. L. Falcone, B. Chopard, and A. G. Hoekstra. Scale-splitting error in complex automata models for reaction-diffusion systems. Lecture Notes in Computer Science pp. 291-300.
V. V. Krzhizhanovskaya and A. G. Hoekstra. Simulation of Multiphysics Multiscale Systems, 5th International Workshop. Lecture Notes in Computer Science pp. 165-166.
J. Hegewald, M. Krafczyk, J. Tölke, A. Hoekstra, and B. Chopard. An agent-based coupling platform for complex automata. Lecture Notes in Computer Science 5102, pp. 227-233.
D. Y. Orlova, M. A. Yurkin, A. G. Hoekstra, and V. P. Maltsev. Light scattering by neutrophils: Model, simulation, and experiment. Journal of Biomedical Optics 13(5), p. 054057.
D. J. W. Evans, P. V. Lawford, J. Gunn, D. Walker, D. R. Hose, R. H. Smallwood, B. Chopard, M. Krafczyk, J. Bernsdorf, and A. Hoekstra. The application of multiscale modelling to the process of development and prevention of stenosis in a stented coronary artery. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 366(1879), pp. 3343-3360.
L. Axner, J. Bernsdorf, T. Zeiser, P. Lammers, J. Linxweiler, and A. G. Hoekstra. Performance evaluation of a parallel sparse lattice Boltzmann solver. Journal of computational Physics 227(10), pp. 4895-4911.
A. G. Hoekstra, V. P. Maltsev, and G. Videen. Optics of Biological Particles.
A. G. Hoekstra, E. Lorenz, J.-L. Falcone, and B. Chopard. Towards a Complex Automata Framework for Multi-Scale Modeling: Formalism and the Scale Separation Map. In: Computational Science - ICCS 2007: 7th International Conference, Beijing, China, Proceedings, Part I. 4487, pp. 922-930.
M. A. Yurkin, A. G. Hoekstra, R. S. Brock, and J. Q. Lu. Systematic comparison of the discrete dipole approximation and the finite difference time domain method. In: The 10th Conference on Electromagnetic and Light Scattering. pp. 249-252.
L. Axner, J. Lätt, A. G. Hoekstra, B. Chopard, and P. M. A. Sloot. Simulating Time Harmonic Flows with the Regularized L-BGK Method. International Journal of Modern Physics C 18, pp. 661-666.
M. A. Yurkin and A. G. Hoekstra. The discrete dipole approximation: an overview and recent developments. Journal of Quantitative Spectroscopy & Radiative Transfer 106, pp. 558-589.
M. A. Yurkin, K. A. Semyanov, V. P. Maltsev, and A. G. Hoekstra. Discrimination of granulocyte subtypes from light scattering: theoretical analysis using a granulated sphere model. Optics Express 15, pp. 16561-16580.
A. G. Hoekstra. Guest Editor Special Issue ‘Simulating Multiphysics Multiscale Systems’ of the International Journal for Multiscale Computational Engineering.
L. Axner, A. G. Hoekstra, and P. M. A. Sloot. Simulating Time Harmonic Flows with the Lattice Boltzmann Method. Physical Review E p. 036709.
K. A. Semyanov, P. A. Tarasov, M. A. Yurkin, A. G. Hoekstra, and V. P. Maltsev. Characterization of native red blood cell morphology by scanning flow cytometry. In: 8th International Congress on Optical Particle Characterization. p. 56.
A. Penttilä, E. Zubko, K. Lumme, K. Muinonen, M. A. Yurkin, B. T. Draine, J. Rahola, A. G. Hoekstra, and Y. Shkuratov. Comparison between discrete dipole implementations and exact techniques. Journal of Quantitative Spectroscopy & Radiative Transfer 106, pp. 417-436.
A. G. Hoekstra and P. M. A. Sloot. Modelleren en Simuleren. In: ICT-Zakboek.
A. G. Hoekstra, E. Lorenz, J.-L. Falcone, and B. Chopard. Toward a Complex Automata Formalism for Multi-Scale Modeling. International Journal for Multiscale Computational Engineering 5, pp. 491-502.
A. G. Hoekstra, S. Portegies Zwart, M. Bubak, and P. M. A. Sloot. Towards distributed petascale computing. In: Petascale computing: Algorithms and applications. ISBN 9781584889090. pp. 147-164.
P. M. A. Sloot and A. G. Hoekstra. Modeling Dynamic Systems with Cellular Automata. In: Handbook of Dynamic System Modeling. pp. 1-20.
S. Murtaza, A. G. Hoekstra, and P. M. A. Sloot. Performance evaluation of FPGA-based Cellular Automata accelerators. In: Proceedings of the Third Annual Reconfigurable Systems Summer Institute (RSSI'07).
M. A. Yurkin, A. G. Hoekstra, R. S. Brock, and J. Q. Lu. Systematic comparison of the discrete dipole approximation and the finite difference time domain method for large dielectric scatterers. Optics Express 15, pp. 17902-17911.
S. Murtaza, A. G. Hoekstra, and P. M. A. Sloot. Performance Modeling of 2D Cellular Automata on FPGA. In: International Conference on Field Programmable Logic and Applications, FPL 2007. pp. 74-78.
M. A. Yurkin, K. A. Semyanov, V. P. Maltsev, and A. G. Hoekstra. Light scattering by granulated spheres applied to discriminate subtypes of granulated blood cells. In: International Conference on Laser Applications in Life Sciences 2007. pp. TuL07-II3.
M. A. Yurkin, V. P. Maltsev, and A. G. Hoekstra. The discrete dipole approximation for simulation of light scattering by particles much larger than the wavelength. Journal of Quantitative Spectroscopy & Radiative Transfer 106, pp. 546-557.
A. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. Optimizing lattice Boltzmann simulations for unsteady flows. Computers & fluids 35(2), pp. 227-240.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, P. M. A. Sloot, and P. Hogeweg. Problem-Solving Environments for Biological Morphogenesis. IEEE Computational Science and Engineering 8, pp. 61-72.
M. A. Yurkin, V. P. Maltsev, and A. G. Hoekstra. Convergence of the discrete dipole approximation. II. An extrapolation technique to increase the accuracy. Journal of the Optical Society of America. A, Optics, Image Science and Vision 23, pp. 2592-2601.
A. G. Hoekstra, B. Chopard, P. Lawford, R. Hose, M. Krafczyk, and J. M. Bernsdorf. Introducing Complex Automata for Modelling Multi-Scale Complex Systems. In: proceedings European Complex Systems Conference 2006.
M. A. Yurkin, D. de Kanter, and A. G. Hoekstra. Applicability of effective medium approximation to light scattering by granulated biological cells- first results. In: Proceedings of the NATO Advanced Research Workshop: opticsof Biological Particles. pp. 46-47.
L. Abrahamyan, J. M. Bernsdorf, T. Zeiser, P. Lammers, A. G. Hoekstra, and P. M. A. Sloot. MPI parallelization and performance aspects of a graph based LB flow solver. In: Proceedings Discrete Simulation of Fluid Dynamics DSFD2006, Geneva, Switserland.
M. A. Yurkin and A. G. Hoekstra. An Extrapolation Technique to Increase the Accuracy of The Discrete Dipole Approximation. In: Proceedings of 9th International Conference on Electromagnetic and Light Scattering by Non-Spherical Particles. pp. 283-286.
A. G. Hoekstra, V. P. Maltsev, and G. Videen. Preface to special issue dedicated to the Optical Properties of Biological Cells. Journal of Quantitative Spectroscopy & Radiative Transfer 102, pp. 1-2.
P. A. Tarasov, M. A. Yurkin, P. A. Avrorov, K. A. Semyanov, A. G. Hoekstra, and V. P. Maltsev. Optics of erythrocytes. In: Optics of Biological Particles. pp. 231-246.
I. V. Kolesnikova, S. V. Potapov, M. A. Yurkin, A. G. Hoekstra, V. P. Maltsev, and K. A. Semyanov. Determination of volume, shape and refractive index of individual blood platelets. Journal of Quantitative Spectroscopy & Radiative Transfer 102, pp. 37-45.
K. A. Semyanov, A. E. Zharinov, P. A. Tarasov, M. A. Yurkin, I. G. Skribunov, D. R. van Bockstaele, A. G. Hoekstra, and V. P. Maltsev. Optics of leucocytes. In: Optics of Biological Particles. pp. 253-264.
L. Abrahamyan, A. G. Hoekstra, and P. M. A. Sloot. Choosing Optimal L-BGK Simulation Parameters for Time Harmonic Flows. In: Proceedings Discrete Simulation of Fluid Dynamics DSFD2006, Geneva, Switserland.
M. A. Yurkin, V. P. Maltsev, and A. G. Hoekstra. Convergence of the discrete dipole approximation. I. Theoretical analysis. Journal of the Optical Society of America. A, Optics, Image Science and Vision 23(10), pp. 2578-2591.
M. A. Yurkin, V. P. Maltsev, and A. G. Hoekstra. Can the Discrete Dipole Approximation Simulate Scattering of Particles with Size Parameter equal to 100?. In: Proceedings of 9th International Conference on Electromagnetic and Light Scattering by Non-Spherical Particles. pp. 279-282.
A. M. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. Mesoscopic simulations of systolic flow in the Human abdominal aorta. Journal of Biomechanics 39, pp. 873-884.
A. G. Hoekstra. Special Issue ‘Optics of Biological Particles’ of J. Quant. Specrt. Rad. Transf. Volume 102, number 1, November 2006.
A. Pentila, E. Zubko, K. Lumme, K. Muinonen, M. A. Yurkin, Y. Shkuratov, and A. G. Hoekstra. Comparison between discrete dipole and exact techniques. In: Proceedings of the 9th Conference on Electromagnetic and Light Scattering by Nonspherical Particles: Theory, Measurement and Applications. pp. 227-230.
P. M. A. Sloot, C. A. B. Boucher, M. T. Bubak, A. G. Hoekstra, P. Plaszczak, A. Posthumus, D. A. M. C. van de Vijver, S. Wesner, and A. Tirado Ramos. VIROLAB - A Virtual Laboratory for Decision Support in Viral Diseases Treatment. In: Cracow Grid Workshop 2005. p. 33.
P. M. A. Sloot, J. A. Kaandorp, and A. G. Hoekstra. Towards Virtual Physiological Human: Multilevel Modelling and Simulation of the Human Anatomy and Phsyiology.
M. A. Yurkin, D. de Kanter, and A. G. Hoekstra. Applicability of effective medium approximation to light scattering by granulated biological cells - first results. In: Proceedings of the NATO Advanced Research Workshop: Optics of Biological Particles. ISBN 978-5-98901-002-8. pp. 46-47.
M. A. Yurkin, K. Semyanov, P. A. Tarasov, A. V. Chernyshev, A. G. Hoekstra, and V. P. Maltsev. Experimental and theoretical study of light scattering by individual mature red blood cells with scanning flow cytometry and discrete dipole approximation. Applied Optics 44, pp. 52449-5256.
P. M. A. Sloot, J. A. Kaandorp, A. G. Hoekstra, N. Ayache, J-P. Boissel, S. Brunak, G. Clapworthy, J Fingberg, G. Lonsdale, A. F. Frangi, G. Deco, P. Hunter, P. L. Nielsen, M. Halstead, R. Hose, I. Magnin, F. Martin-Sanchez, S. van Sint Jan, and M. Viceconti. Towards Virtual Physiological Human: multilevel modelling and simulation of the human anatomy and phsyiology.
A. Tirado Ramos, D. P. Shamonin, R. Shulakov, D. J. Groen, A. G. Hoekstra, G. D. van Albada, E. V. Zudilova-Seinstra, and P. M. A. Sloot. Interactive Problem Solving Environments on the Grid for Image-based Computational Haemodynamics. In: The CrossGrid Book.
A. G. Hoekstra and P. M. A. Sloot. Introducing Grid Speedup Gamma: A Scalability Metric for Parallel Applications on the Grid. Lecture Notes in Computer Science 3470, pp. 534-543.
M. A. Yurkin, K. Semyanov, A. G. Hoekstra, and V. P. Maltsev. Experimental and Theoretical Study of Light Scattering by Individual Mature Red Blood Cells with Scanning Flow Cytometry and Discrete Dipole Approximation. In: Proceedings 8th Conference on Electromagnetic and Light Scattering by Nonspherical Particles: Theory, Measurement and Applications. pp. 333-336.
A. G. Hoekstra. Image-based computational hemodynamics with the Lattice Boltzmann method. In: Computational Fluid and Solid Mechanics 2005. pp. 672-675.
P. M. A. Sloot, A. G. Hoekstra, T. Priol, A. Reinefeld, and M. T. Bubak. Advances in Grid Computing - EGC 2005. ISBN 9783540269182.
L. Abrahamyan, J. A. Schaap, A. G. Hoekstra, D. P. Shamonin, F. M. A. Box, R. J. van der Geest, J. H. C. Reiber, and P. M. A. Sloot. A Problem Solving Environment for Image-Based Computational Hemodynamics. Lecture Notes in Computer Science 3514, pp. 287-294.
M. A. Yurkin and A. G. Hoekstra. Capabilities of the discrete dipole approximation for simulation light scattering by biological cells. In: Proceedings of the NATO Advanced Research Workshop: Optics of Biological Particles. pp. 19-20.
P. M. A. Sloot, C. A. Boucher, M. T. Bubak, A. G. Hoekstra, P. Plaszczak, A. Postumus, D. van de Vijver, S. Wesner, and A. Tirado Ramos. VIROLAB - A virtual Laboratory for Decision Support in Viral Diseases Treatment. In: Cracow Grid Workshop.
P. M. A. Sloot, B. Chopard, and A. G. Hoekstra. Cellular Automata: 6th International Conference on Cellular Automata for Research and Industry, ACRI 2004, Amsterdam, The Netherlands, October 25-28, 2004. ISBN 978-3-540-23596-5. Lecture Notes in Computer Science 3305.
A. M. M. Artoli, L. Abrahamyan, and A. G. Hoekstra. Accuracy versus Performance in Lattice Boltzmann BGK Simulations of Systolic Flows. Lecture Notes in Computer Science 3039, pp. 548-555.
P. M. A. Sloot and A. G. Hoekstra. Virtual Vascular Surgery on the Grid. ERCIM News 59, pp. 50-51.
P. M. A. Sloot, A. Tirado Ramos, A. G. Hoekstra, and M. T. Bubak. An Interactive Grid Environment for Non-Invasive Vascular Reconstruction. In: Proceedings of the 2nd International Workshop on Biomedical Computations on the Grid. ISBN 9780780384316.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Polyp oriented modelling of coral growth. Journal of Theoretical Biology 228(4), pp. 559-576.
K. Semyanov, P. A. Tarasov, A. E. Zharinov, A. V. Chernyshev, A. G. Hoekstra, and V. P. Maltsev. Single-Particle Sizing from Light Scattering by Spectral Decomposition. Applied Optics 43(26), pp. 5110-5115.
A. M. M. Artoli, D. Kandhai, H. C. J. Hoefsloot, A. G. Hoekstra, and P. M. A. Sloot. Lattice BGK simulations of flow in a symmetric bifurcation. Future Generation Computer Systems 20(6), pp. 909-916.
A. G. Hoekstra, J. van 't Hoff, A. M. M. Artoli, and P. M. A. Sloot. Unsteady flow in a 2D elastic tube with the LBGK method. Future Generation Computer Systems 20(6), pp. 917-924.
A. Tirado Ramos, P. M. A. Sloot, A. G. Hoekstra, and M. T. Bubak. An integrative approach to high-performance biomedical problem solving environments on the Grid. Parallel Computing 30(9-10), pp. 1037-1055.
B. Chopard and A. G. Hoekstra. Special issue : Computational Science of Lattice Boltzmann Modelling (Editorial). Future Generation Computer Systems 20(6), pp. 907-908.
B. Chopard and A. G. Hoekstra. Guest Editorial, Computational science of lattice Boltzmann modelling. Future Generation Computer Systems 20, pp. 907-908.
B. Chopard and A. G. Hoekstra. Computational science of lattice Boltzmann modelling (guest editorial). Future Generation Computer Systems 20, pp. 907-908.
P. M. A. Sloot, B. Chopard, and A. G. Hoekstra. Cellular Automata, Proccedings ACRI2004. ISBN 9783540235965.
A. M. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. Accelerated Lattice BGK method for unsteady simulations through Mach number annealing. International Journal of Modern Physics C 14(6), pp. 835-847.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Problem Solving Environment for Modelling Stony Coral Morphogenesis. In: Computational Science - ICCS 2003. ISBN 9783540401940. 2657, pp. 639-648.
A. G. Hoekstra, J. van 't Hoff, A. M. M. Artoli, and P. M. A. Sloot. Lattice BGK Simulations of Unsteady Flow in a 2D Elastic Tube. In: Computational Science - ICCS 2003. ISBN 9783540401940. 2657, pp. 997-1006.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Models of coral growth: Spontaneous branching, compactification and the Laplacian growth assumption. Journal of Theoretical Biology 224(2), pp. 153-166.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Diffusion Limited Growth In Laminar Flows. International Journal of Modern Physics C 14, pp. 1171-1182.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Branching and compactification in a model of coral growth: a critical reinvestigation of the effect of hydrodynamics. In: Mathematical modelling & Computing in Biology and Medicine; 5th ESMTB Conference 2002. pp. 539-544.
A. M. M. Artoli, B. D. Kandhai, H. C. J. Hoefsloot, A. G. Hoekstra, and P. M. A. Sloot. Lattice Boltzmann, a robust and accurate solver for interactive computational hemodynamics. In: Computational Science - ICCS 2003. ISBN 9783540401940. 2657, pp. 1034-1043.
A. M. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. Simulation of a Systolic Cycle in a Realistic Artery with the Lattice Boltzmann BGK Method. International Journal of Modern Physics C 17(1 en 2), pp. 95-98.
A. G. Hoekstra and V. A. Babenko. Accuracy of internal fields inside spheroids in DDA-simulations of light scattering. In: Electromagnetic and Light Scattering Theory and Applications VII. ISBN 9783887225797. pp. 123-126.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Branching and compactification in a model of coral growth: a critical reinvestigation of the effect of hydrodynamics. In: ECMTB2002: 5th Conference of the European Society of the Mathematical and Theoretical Biology, book of abstracts.
R. M. H. Merks, A. G. Hoekstra, J. A. Kaandorp, and P. M. A. Sloot. Spontaneous branching in a polyp oriented model of stony coral growth. In: Computational Science- ICCS 2002, Proceedings Part I. 2329, pp. 88-96.
P. M. A. Sloot, C. J. K. Tan, J. J. Dongarra, and A. G. Hoekstra. Computational Science - ICCS 2002, Proceedings Part III. In: Lecture Notes in Computer Science. 2331.
A. M. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. Accuracy of 2D pulsatile flow in the lattice Boltzmann BGK method. In: LNCS; Computational Science - ICCS 2002, Proceedings Part I. 2329, pp. 361-370.
A. M. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. 3D Pulsatile flow with the Lattice Boltzmann BGK Method. International Journal of Modern Physics C 13(8), pp. 1119-1134.
B. D. Kandhai, D. Hlushkou, A. G. Hoekstra, P. M. A. Sloot, H. van As, and U. Tallarek. Influence of Stagnant Zones on Transient and Asymptotic Dispersion in Macroscopically Homogeneous Porous Media. Physical Review Letters 88(23), pp. 1-4.
R. M. H. Merks, A. G. Hoekstra, and P. M. A. Sloot. The moment propagation method for advection-diffusion in the lattice Boltzmann method: validation and Péclet number limits. Journal of computational Physics 183, pp. 563-576.
P. M. A. Sloot, C. J. K. Tan, J. J. Dongarra, and A. G. Hoekstra. Computational Science - ICCS 2002. ISBN 9783540435914. 1.
P. M. A. Sloot, C. J. K. Tan, J. J. Dongarra, and A. G. Hoekstra. Computational Science - ICCS 2002, Proceedings Part II. In: Lecture Notes in Computer Science. 2330.
B. D. Kandhai, U. Tallarek, D. Hlushkou, A. G. Hoekstra, P. M. A. Sloot, and H. van As. Numerical simulation and measurement of liquid hold-up in biporous media containing discrete stagnant zones. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 360, pp. 521-534.
A. M. M. Artoli, B. D. Kandhai, H. G. Hoefsloot, A. G. Hoekstra, and P. M. A. Sloot. Shear Stress in Lattice Boltzmann Simulations. In: Europhysics Conference on Computational Physics in series Publication Series of the John von Neumann Institute for computing. 8, p. A127.
P. M. A. Sloot, J. A. Kaandorp, A. G. Hoekstra, and B. J. Overeinder. Distributed Cellular Automata: Large Scale Simulation of Natural Phenomena. In: Solutions to Parallel and Distributed Computing Problems: Lessons from Biological Sciences. pp. 1-46.
P. M. A. Sloot and A. G. Hoekstra. Cellular Automata as a Mesoscopic Approach to Model and simulate Complex Systems. In: Proceedings of the 2001 International Conference on Computational Science ICCS 2001, in series LNCS volume 2074 (II). ISBN 9783540422334. LNCS 2074, pp. 518-527.
B. D. Kandhai, A. Koponen, A. G. Hoekstra, and P. M. A. Sloot. Iterative momentum relaxation for fast lattice-Boltzmann Simulations. Future Generation Computer Systems 18(1), pp. 89-96.
A. G. Hoekstra and P. M. A. Sloot. Wall effects on density fluctuations in the GBL thermal lattice gas automaton. Computer Physics Communications 142(1-3), pp. 151-154.
L. O. Hertzberger, A. G. Hoekstra, and R. D. Williams. Proceedings High-Performance Computing and Networking (HPCN Europe 2001). ISBN 9783540422938.
A. M. M. Artoli, A. G. Hoekstra, and P. M. A. Sloot. Time dependent flow in a rigid tube using the Lattice Boltzmann Method. In: International Conference on Discrete Simulation of Fluid Dynamics in series Europhysics Conference Abstracts. 25H, p. 3.
R. M. H. Merks, A. G. Hoekstra, and P. M. A. Sloot. Validation of the Lowe-Frenkel tracer dispersion method in the lattice Boltzmann method. In: Europhysics Conference on Computational Physics, in series Publication series of the John von Neumann Institute for Computing. 8, p. A140.
R. M. H. Merks, A. G. Hoekstra, and P. M. A. Sloot. Validation of the Lowe-Frenkel tracer dispersion method in the lattice Botzmann method. In: Proceedings of the 7th annual conference of the Advanced School for Computing and Imaging. ISBN 9789080308664. pp. 137-141.
A. G. Hoekstra, M. O. Frijlink, L. B. F. M. Waters, and P. M. A. Sloot. Radiation forces in the discrete-dipole approximation. Journal of the Optical Society of America. A, Optics, Image Science and Vision 18(8), pp. 1944-1953.
H. E. Bal, R. A. F. Bhoedjang, R. F. H. Hofman, C. J. H. Jacobs, T. Kielmann, J. Maassen, R. van Nieuwpoort, J. Romein, L. Renambot, T. Rühl, R. Veldema, K. Verstoep, A. Baggio, G. Ballintijn, I. Kuz, G. Pierre, M. R. van Steen, A. S. Tanenbaum, G. Doornbos, D. Germans, H. J. W. Spoelder, E.-J. Baerends, S. van Gisbergen, H. Afsarmanesh, G. D. van Albada, A. S. Z. Belloum, D. Dubbeldam, Z. W. Hendrikse, L. O. Hertzberger, A. G. Hoekstra, K. A. Iskra, B. D. Kandhai, D. C. Koelma, F. van der Linden, B. J. Overeinder, P. M. A. Sloot, P. F. Spinnato, D. H. J. Epema, A. van Gemund, P. P. Jonker, A. Radulescu, C. van Reeuwijk, H. J. Sips, P. M. W. Knijnenburg, M. Lew, F. Sluiter, L. Wolters, H. Blom, and A. J. van der Steen. The Distributed ASCI supercomputer project. Operating Systems Review 34(4), pp. 76-96.
P. M. A. Sloot, J. A. Kaandorp, A. G. Hoekstra, and B. J. Overeinder. Distributed Cellular Automata: Large Scale Simulation of Natural Phenomena. In: Bio-inspired Computation.
A. G. Hoekstra, M. O. Frijlink, and P. M. A. Sloot. Calculation of the radiation forces on each dipole in the discrete dipole approximation. In: Light Scattering by Nonspherical Particles: Halifax Contributions. ISBN 9780970231604. pp. 237-240.
D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Dynamic Structure Factor in Single and Two-Species Thermal GBL Lattice Gas. Computer Physics Communications 129, pp. 13-20.
A. G. Hoekstra and P. M. A. Sloot. Biophysical and Biomedical Applications of Non-Spherical Scattering. In: Light Scattering by Nonspherical Particles, Theory Measurements and Applications. ISBN 9780124986602. pp. 585-602.
A. G. Hoekstra and P. M. A. Sloot. Distributed Particle Simulation of Flow in Complex Geometries. In: High Performance Computing in Engineering VI. pp. 371-380.
B. D. Kandhai, W. Soll, S. Chen, A. G. Hoekstra, and P. M. A. Sloot. Finite-Difference Lattice-BGK Methods on Nested Grids. Computer Physics Communications 129, pp. 100-109.
D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Computational Aspects of Multi-Species Lattice-Gas Automata. In: High-Performance Computing and Networking (HPCN Europe '99), Amsterdam, The Netherlands. ISBN 978-3-540-65821-4. Lecture Notes in Computer Science pp. 339-349.
P. M. A. Sloot, J. A. Kaandorp, A. G. Hoekstra, and B. J. Overeinder. Distributed Simulation with Cellular Automata: Architecture and Applications. In: SOFSEM'99 Theory and Practice of Informatics, Proceedings of 26th Seminar on Current Trends, in Theory and Practice of Informatics, Milovy, Czech Republic, November 27 - December 4. ISBN 978-3-540-66694-3. Lecture Notes on Computer Science pp. 203-249.
P. M. A. Sloot, J. A. Kaandorp, A. G. Hoekstra, and B. J. Overeinder. Distributed simulation with cellular automata: Architecture and applications. Lecture Notes in Computer Science 1725, pp. 203-249.
B. D. Kandhai, A. Koponen, A. G. Hoekstra, M. Kataja, J. Timonen, and P. M. A. Sloot. Implementation aspects of 3d lattice-bgk: Boundaries, accuracy and a new fast relaxation method. Journal of comparative physiology 150, pp. 482-501.
B. D. Kandhai, A. Koponen, A. G. Hoekstra, and P. M. A. Sloot. Iterative momentum relaxation for fast lattice-boltzmann simulations. In: Proceedings of the fifth annual conference of the Advanced School for Computing and Imaging ASCI, June 15-17, 1999. pp. 274-278.
B. D. Kandhai, A. Koponen, A. G. Hoekstra, and P. M. A. Sloot. Iterative momentum relaxation for fast lattice-boltzmann simulations. Lecture Notes in Computer Science 1593, pp. 311-318.
D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Computational aspects of multispecies lattice-gas automata. Lecture Notes in Computer Science 1593, pp. 339-349.
P. M. A. Sloot, M. T. Bubak, A. G. Hoekstra, and L. O. Hertzberger. Proceedings High-Performance Computing and Networking (HPCN Europe '99), Amsterdam, the Netherlands. ISBN 9783540658214.
B. D. Kandhai, D. Vidal, A. G. Hoekstra, H. C. J. Hoefsloot, P. Iedema, and P. M. A. Sloot. Lattice-boltzmann and finite element simulations of fluid flow in a SMRX mixer. International Journal for Numerical Methods in Fluids 31, pp. 1019-1033.
A. G. Hoekstra, M. O. Frijlink, D. de Kanter, and P. M. A. Sloot. Two new applications of large scale dda simulations. In: Proceedings of the 4th Conference on Electromagnetic and light Scattering by Nonspherical Particles:Theory and Applications. pp. 333-334.
D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Computational aspects of multispecies lattice-gas automata. In: Proceedings of the fifth annual conference of the Advanced School for Computing and Imaging ASCI, June 15-17, 1999. June 1999, pp. 267-273.
A. G. Hoekstra and A. Bode. Guest Editorial, High Performance Computing and Networking Europe 1997. Future Generation Computer Systems 13(4--5), pp. 247-249.
A. G. Hoekstra and A. Bode. Special Issue on High Performance Computing and Networking Europe 1997. Future Generation Computer Systems 13(4--5), pp. 247-400.
B. D. Kandhai, D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Lattice Boltzmann hydrodynamics in Centrifugal Elutriation Chambers. In: Proceedings of the fourth annual conference of the Advanced School for Computing and Imaging. pp. 269-274.
A. G. Hoekstra, J. Rahola, and P. M. A. Sloot. Accuracy of Internal Fields in Volume Integral Equation Simulations of Light Scattering. Applied Optics 37, pp. 8482-8497.
B. D. Kandhai, D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Parallel Lattice-Boltzmann Simulation of fluid flow in centrifugal elutration chambers. In: high- performance computing and networking (HPCN Europe '98). ISBN 9783540644439. pp. 173-182.
B. D. Kandhai, A. Koponen, A. G. Hoekstra, M. Kataja, J. Timonen, and P. M. A. Sloot. Lattice Boltzmann Hydrodynamics on Parallel Systems. Computer Physics Communications 111, pp. 14-26.
A. G. Hoekstra and A. Bode. Guest editorial, high performance computing and networking Europe 1997. Future Generation Computer Systems 4-5(13), pp. 247-249.
B. D. Kandhai, D. Dubbeldam, A. G. Hoekstra, and P. M. A. Sloot. Lattice Boltzmann hydrodynamics in centrifugal elutriation chambers. In: Proc. of the fourth annual conf. of the advanced school for computing and imaging. pp. 91-97.
A. G. Hoekstra, M. D. Grimminck, and P. M. A. Sloot. Large scale simulations of elastic light scattering by a fast dipole approximation. International Journal of Modern Physics C pp. 87-102.
J. M. Braan, A. G. Hoekstra, and P. M. A. Sloot. Prototyping an HPCNet Distance Learning Environment: Rationale and Implementation.
A. G. Hoekstra, J. Rahola, and P. M. A. Sloot. Internal fields in volume integral equation simulations of light scattering: accuracy and resonances. In: Proceedings of conf. on light scattering by nonspherical particles: theory, measurements and applications. pp. 16-19.
M. A. Kartawidjaja and A. G. Hoekstra. Memory efficiency of parallel programs and memory bounded speedup. In: High-performance computign and networking (HPCN Europe '98). ISBN 9783540644439. pp. 766-775.
L. Dorst, A. Hoekstra, J. M. van den Akker, J. Breeman, F. C. A. Groen, J. Lagerberg, A. Visser, H. Yakali, and L. O. Hertzberger. Evaluation automatic debiting systems by modelling and simulation of virtual sensors. IEEE Transactions on Instrumentation and Measurement 1(2), pp. 18-25.
A. G. Hoekstra and P. M. A. Sloot. A parallel fast discrete dipole approximation for large scale simulations of elastic light scattering. In: ASCI '98 Proceedings of the fourth annual conference of the advanced school for computing and imaging. pp. 73-79.
B. D. Kandhai, D. Vidal, A. G. Hoekstra, H. C. J. Hoefsloot, P. Iedema, and P. M. A. Sloot. A comparison between lattice-boltzmann and finite element simulations of fluid flow in static mixer reactors. International Journal of Modern Physics C 9(8), pp. 1123-1128.
A. G. Hoekstra, L. Dorst, M. Bergman, J. M. Lagerberg, A. Visser, H. H. Yakali, F. C. A. Groen, and L. O. Hertzberger. High Performance Discrete Event Simulations to evaluate Complex Industrial Systems, The case of Automatic Debiting Systems for Electronic Toll Collection on Motor Highways. In: High Performance Computing and Networking. Lecture Notes in Computer Science 1225, pp. 41-50.
A. G. Hoekstra, W. Hoffmann, M. A. Kartawidjaja, B. J. Overeinder, J. Santoso, and P. M. A. Sloot. A High Performance Simulation Environment, project status report. .
B. D. Kandhai, A. Koponen, A. G. Hoekstra, M. Kataja, J. Timonen, and P. M. A. Sloot. Performance of a parallel 3d lattice boltzmann code for simulating fluid flow. In: International Workshop on Physics of Structurally Disordered Materials.
A. G. Hoekstra, G. R. Meijer, and L. O. Hertzberger. A generic simulation environment to evaluate and design automatic debitting systems. In: Proceeding Intelligent Transport Systems 1997.
A. Koponen, M. Kataja, J. Timonen, B. D. Kandhai, A. G. Hoekstra, and P. M. A. Sloot. Fluid flow in three-dimensional random fibre webs. In: CSC News, High Performance Computing and Networking in Finland. pp. 12-14.
A. G. Hoekstra and P. M. A. Sloot. Elastic light scattering from single biological cells. In: Progress in Electromagnetics Research Symposium 1997. p. 583.
A. G. Hoekstra, P. J. H. Brinkhorst, and P. M. A. Sloot. First results of dda simulations of elastic light scattering by red blood cells. In: Proceedings Workshop on Light Scattering by Non-Spherical Particles (SCANOP). pp. 39-40.
A. Koponen, B. D. Kandhai, E. Hellen, M. Alava, A. G. Hoekstra, M. Kataja, K. Niskanen, P. M. A. Sloot, and J. Timonen. Permeability of three-dimensional random fibre webs. Physical Review Letters .
L. Dorst, F. C. A. Groen, J. M. van den Akker, J. Breeman, A. G. Hoekstra, J. M. Lagerberg, A. Visser, H. Yakali, and L. O. Hertzberger. The virtual sensor concept applied to simulation: the evaluation of automatic debiting system. In: Proceedings 1997 Workshop on Emergent Technologies and Virtual Systems for Instrumentation and Measurements. pp. 118-124.
A. G. Hoekstra, L. Dorst, M. Bergman, J. Lagerberg, A. Visser, H. Yakali, F. Groen, and L. O. Hertzberger. High performance discrete event simulations to evaluate complex industrial systems, the case of automatic. Lecture Notes in Computer Science 1225, pp. 41-50.
B. J. Overeinder and A. G. Hoekstra. Performance measurements of a light scattering code on the Parsytec CC: Comparison with the Parsytec PowerXplorer. In: Proceedings of the third annual conference of the Advanced School for Computing and Imaging. pp. 116-119.
A. G. Hoekstra, L. Dorst, M. Bergman, J. Lagerberg, A. Visser, H. Yakali, F. Groen, and L. O. Hertzberger. Modelling and simulation of automatic debiting systems for electronic toll collection on motor highways. In: Applied Modelling and Simulation. ISBN 9780889862302. pp. 104-108.
A. G. Hoekstra, J. M. Lagerberg, and L. O. Hertzberger. Modelling and Simulation of an Automatic Debiting System. In: CERN School of Computing. pp. 233-240.
A. G. Hoekstra and P. M. A. Sloot. The Discrete Dipole Approximation - Possibilities and Problems to Simulate Elastic Light Scattering. In: Proceedings of the 1st Workshop on Electromagnetic and Light Scattering, Theory and Applications. pp. 7-18.
A. G. Hoekstra and P. M. A. Sloot. Parallel Hierarchical Methods for Large Scale Simulations of Virtual Particle Models. In: ASCI 1996, Proceedings of the second annual conference of the Advanced School for Computing and Imaging. pp. 49-53.
A. G. Hoekstra, M. D. Grimminck, and P. M. A. Sloot. Simulating Light Scattering from micron-sized particles: A parallel Fast Discrete Dipole Approximation. In: Proceedings High Performance Computing and Networking Europe 1996. pp. 269-275.
R. M. P. Doornbos, M. Schaeffer, A. G. Hoekstra, P. M. A. Sloot, B. G. de Grooth, and J. Greve. Elastic Light Scattering Measurements of Single Biological Cells in an Optical Trap. Applied Optics 34, pp. 729-734.
A. G. Hoekstra, P. M. A. Sloot, F. van der Linden, M. van Muiswinkel, J. J. J. Vesseur, and L. O. Hertzberger. Native and Generic Parallel Programming Environments on a Transputer and a PowerPC Platform. Concurrency Practice and Experience 8, pp. 19-46.
A. G. Hoekstra, L. O. Hertzberger, and P. M. A. Sloot. The Optical `Fingerprints' of Cells: Catching the Bad Guys. IEEE Computational Science and Engineering Spring, pp. 4-5.
A. G. Hoekstra, P. M. A. Sloot, and L. O. Hertzberger. Comparing the Parix and PVM parallel programming environments. In: ASCI '95: Proceedings of the first annual conference of the Advanced School for Computing and Imaging. pp. 288-292.
A. G. Hoekstra and P. M. A. Sloot. Simulating Elastic Light Scattering. In: PowerXplorer User Report, 1st edition. pp. 65-69.
A. G. Hoekstra, P. M. A. Sloot, and L. O. Hertzberger. Comparing the Parix and PVM parallel programming environments. In: Proceedings of the Workshop on Parallel Programming and Computation (ZEUS '95) and the 4th Nordic Transputer Conference (NTUG '95). pp. 13-17.
A. G. Hoekstra and P. M. A. Sloot. Development of Parallel Hierarchical Methods. In: PowerXplorer User Report, 1st edition. pp. 70-76.
A. G. Hoekstra and P. M. A. Sloot. Coupled Dipole Simulations of Elastic Light Scattering on Parallel Systems. International Journal of Modern Physics C 6, pp. 663-679.
A. G. Hoekstra, P. M. A. Sloot, and L. O. Hertzberger. Comparing the Parix and PVM parallel programming enviroments. In: Transputer and Occam Engineering Series, Parallel Programming and Applications, Workshop Proceedings. pp. 13-17.
P. M. A. Sloot, A. G. Hoekstra, and L. O. Hertzberger. A Comparison of the Iserver-Occam, Parix, Express, and PVM Programming Environments on a Parsytec GCel. In: High Performance Computing and Networking, Volume II Networking and Tools. pp. 253-259.
G. J. Streekstra, A. G. Hoekstra, and R. M. Heethaar. Anomalous Diffraction by arbitrarily oriented Ellipsoids: Applications in Ektacytometry. Applied Optics 33, pp. 7288-7296.
A. G. Hoekstra and P. M. A. Sloot. New Computational Techniques to Simulate Light Scattering from Arbitrary Particles. Particle & Particle Systems Characterization 11, pp. 189-193.
A. G. Hoekstra. Computer Simulations of Elastic Light Scattering. Supervised by L. O. Hertzberger and P. M. A. Sloot.
R. M. P. Doornbos, A. G. Hoekstra, K. E. I. Deurloo, B. G. de Grooth, P. M. A. Sloot, and J. Greve. Lissajous-Like Patterns in Scatter Plots of Calibration Beads. Cytometry 16, pp. 236-242.
A. G. Hoekstra, R. M. P. Doornbos, K. E. I. Deurloo, H. J. Noordmans, B. G. de Grooth, and P. M. A. Sloot. Yet another face of Lorenz-Mie scattering: monodisperse distributions of spheres produce Lissajous-like patterns. Applied Optics 33, pp. 494-500.
A. G. Hoekstra and P. M. A. Sloot. Dipolar Unit Size in Coupled Dipole Calculations of the Scattering Matrix Elements Elements. Optics Letters 18, pp. 1211-1213.
A. G. Hoekstra and P. M. A. Sloot. New computational techniques to simulate Light Scattering from arbitrary particles. In: The 3rd International Congress on Optical Particle Sizing '93. pp. 167-172.
G. J. Streekstra, A. G. Hoekstra, E.-J. Nijhof, and R. M. Heethaar. The interpretation of light scattering by ellipsoidal red blood cells in ektacytometry: Fraunhofer versus anomalous diffraction. Applied Optics 32, pp. 2266-2272.
A. G. Hoekstra, R. M. P. Doornbos, K. E. I. Deurloo, H. J. Noordmans, B. G. de Grooth, and P. M. A. Sloot. An unexpected signature of Lorenz-Mie scattering observed in FlowCytometric experiments. In: The 3rd International Congress on Optical Particle Sizing '93. pp. 153-158.
G. J. Streekstra, A. G. Hoekstra, and R. M. Heethaar. Anomalous diffraction as a tools for the characterization of ellipsoidal red blood cells in Ektacytometry. In: Proceedings of the 3rd International Congress on Optical Particle Sizing. pp. 37-42.
P. M. A. Sloot and A. G. Hoekstra. Light Scattering simulations on a massively parallel computer at the IC3A. Transputer Applications 1, pp. 42-49.
A. G. Hoekstra and P. M. A. Sloot. Implementation of a Parallel Conjugate Gradient Method for Simulation of Elastic Light. In: The 4th international conference Physics Computing '92. pp. 345-346.
R. M. P. Doornbos, A. G. Hoekstra, K. E. I. Deurloo, B. G. de Grooth, P. M. A. Sloot, and J. Greve. Polarization measurements in a Flow Cytometer; Lissajous Pattererns in scatter plots of calibrations beads. Cytometry Supplement.
A. G. Hoekstra and P. M. A. Sloot. Simulating Elastic Light Scattering using High Performance Computing methods. In: European Simulation Symposium 1993. pp. 462-467.
P. M. A. Sloot, A. G. Hoekstra, W. Hoffmann, and L. O. Hertzberger. Time Complexity of a Parallel Conjugate Gradient Solver for Light Scattering Simulations: Theory and SPMD Implementation. .
P. M. A. Sloot and A. G. Hoekstra. Implementation of a parallel conjugate gradient method for simulation of elastic light scattering. Computers in Physics 6, pp. 323-323.
A. G. Hoekstra, L. O. Hertzberger, and P. M. A. Sloot. Simulation of Elastic Light Scattering on distributed memory machines. Bulletin of the American Physical Society 36, pp. 1798-1798.
A. G. Hoekstra, P. M. A. Sloot, M. J. Haan, and L. O. Hertzberger. Time complexity analysis for distributed memory computers: Implementation of a parallel Conjugate Gradient method. In: Computing Science in the Netherlands. pp. 249-266.
G. J. Streekstra, A. G. Hoekstra, E.-J. Nijhof, and R. M. Heethaar. The interpretation of the light scattering by ellipsoidal red blood cells in ektacytometry: Fraunhofer versus Anomalous Diffraction. Medical & Biological Engineering & Computing 29, pp. 849-849.
A. G. Hoekstra, J. Aten, and P. M. A. Sloot. The effect of aniosmotic media on the volume of the T-lymphocyte nucleus. Biophysical Journal 59, pp. 765-774.
P. M. A. Sloot and A. G. Hoekstra. Arbitrarily-shaped particles measured in Flow-through systems. In: The 2nd internaltional congress on particle sizing. pp. 605-611.
P. M. A. Sloot and A. G. Hoekstra. Morphological characteristics of nucleated bloodcells studied by elastic light scattering. In: The 2nd international congress on particle sizing. pp. 382-394.
P. M. A. Sloot, M. J. Carels, and A. G. Hoekstra. CACE: a case of Embedded System Development. In: Computing Science in the Netherlands. pp. 441-462.
P. M. A. Sloot, A. G. Hoekstra, H. van de Liet, and C. G. Figdor. Scatter matrix elements of biological particles measured in a flow-through system: Theory and practice. Applied Optics 28, pp. 1752-1762.
P. M. A. Sloot, H. van der Liet, A. G. Hoekstra, and C. G. Figdor. Scattering matrix elements of biological particles measured in a flow through system: theory and practice. Applied Optics 28(10), pp. 1752-1762.
J. M. M. de Nijs, A. H. M. Holtslag, A. G. Hoekstra, and A. van Silfhout. Calibration method for rotating-analyzer ellipsometers. Journal of the Optical Society of America. A, Optics and Image Science 5, pp. 1466-1471.
P. M. A. Sloot, A. G. Hoekstra, and C. G. Figdor. Osmotic response of lymphocytes measured by means of forward lightscattering: theoretical considerations. Cytometry 9(6), pp. 636-641.

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