-
Article
R. G. Belleman.
Visualization in computational science.
Procedia Computer Science
1(1), pp. 1689-1690.
-
Proceedings
A. Lunzer, R. Belleman, P. Melis, J. Pukacki, P. Spychala, and G. Stamatakos.
Validating the ACGT Oncosimulator with a Grid-Supported Visualisation Environment.
In:
4th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation.
-
Proceedings
I. Altintas, M. K. Anand, D. Crawl, S. Bowers, A. Belloum, P. Missier, B. Ludäscher, C. A. Goble, and P. M. A. Sloot.
Understanding collaborative studies through interoperable workflow provenance.
In:
Provenance and Annotation of Data and Processes.
ISBN
9783642178191.
pp. 42-58.
-
Proceedings
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.
-
Proceedings
F. Berretz, S. Skorupa, V. Sander, and A. Belloum.
Towards an actor-driven workflow management system for Grids.
In: The 2010 International Symposium on Collaborative Technologies and Systems : CTS 2010.
ISBN 9781424466191.
pp. 611-616.
-
Article
D. Groen, S. Harfst, and S. Portegies Zwart.
The living application: A self-organizing system for complex grid tasks.
International Journal of High Performance Computing Applications
24(2), pp. 185-193.
-
Article
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(1), pp. 971-978.
-
Article
P. M. A. Sloot.
The cross-disciplinary road to true computational science.
Journal of Computational Science
1(3), p. 131.
-
Proceedings
G. Stamatakos, D. Dionysiou, E. Georgiadi, E. Kolokotroni, S. Giatili, A. Hoppe, C. Desmedt, A. Lunzer, M. Erdt, J. Jacques, J. Pukacki, R. Belleman, P. Melis, A. d'Onofrio, F. M. Buffa, B. Claerhout, S. Rueping, K. Marias, M. Tsiknakis, and N. Graf.
The ACGT Oncosimulator: from conceptualization to development via multiscale cancer modeling.
In:
4th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation - The ContraCancrum Workshop.
pp. 54-57.
-
Article
V. Krzhizhanovskaya.
Simulation of Multiphysics Multiscale Systems, 7th International Workshop.
Procedia Computer Science
1(1), pp. 603-605.
-
Article
S. Portegies Zwart, T. Ishiyama, D. Groen, K. Nitadori, J. Makino, C. de Laat, S. McMillan, K. Hiraki, S. Harfst, and P. Grosso.
Simulating the universe on an intercontinental grid.
Computer
43(8), pp. 63-70.
-
Book
-
Chapter
J. Cui, J. A. Kaandorp, P. M. A. Sloot, and P. S. Thiagarajan.
Simulating Calcineurin-Centered Calcium Signaling Network in Cardiac Myocytes.
In:
Congestive heart failure: symptoms, causes and treatment.
ISBN
9781608766772.
pp. 111-127.
-
Article
P. R. Frade, M. C. Reyes-Nivia, J. Faria, J. A. Kaandorp, P. C. Luttikhuizen, and R. P. M. Bak.
Semi-permeable species boundaries in the coral genus Madracis: Introgression in a brooding coral system.
Molecular Phylogenetics and Evolution
57(3), pp. 1072-1090.
-
Article
S. Mei, D. van de Vijver, L. Xuan, Y. Zhu, and P. M. A. Sloot.
Quantitatively evaluating interventions in the influenza A (H1N1) epidemic on China campus grounded on individual-based simulations.
Procedia Computer Science
1(1), pp. 1675-1682.
-
Article
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.
-
Proceedings
A. Lunzer, R. Belleman, P. Melis, and G. Stamatakos.
Preparing, exploring and comparing cancer simulation results within a large parameter space.
In:
14th International Conference Information Visualisation.
ISBN
9780769541655.
pp. 258-264.
-
Article
P. M. A. Sloot, G. D. van Albada, and J. Dongarra.
Preface.
Procedia Computer Science
1(1), pp. 1-2.
-
Proceedings
-
Article
U. Schwiegelshohn, R. M. Badia, M. T. Bubak, M. Danelutto, S. Dustdar, F. Gagliardi, A. Geiger, L. Hluchy, D. Kranzlmüller, E. Laure, T. Priol, A. Reinefeld, M. Resch, A. Reuter, O. Rienhoff, T. Rüter, P. Sloot, D. Talia, K. Ullmann, R. Yahyapour, and G. von Voigt.
Perspectives on grid computing.
Future Generation Computer Systems
26(8), pp. 1104-1115.
-
Article
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.
-
Proceedings
B. P. Gouldby, V. V. Krzhizhanovskaya, and J. Simm.
Multiscale modelling in real-time flood forecasting systems: From sand grain to dike failure and inundation.
In:
ICCS 2010.
Procedia Computer Science
1(1), pp. 809 - 809.
-
Article
B. Gouldby, V. Krzhizhanovskaya, and J. Simm.
Multiscale modelling in real-time flood forecasting systems: From sand grain to dike failure and inundation.
Procedia Computer Science
1(1), p. 809.
-
Proceedings
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.
-
Proceedings
V. Krzhizhanovskaya, D. Ivanov, Y. Gorbachev, and A. Smirnov.
Multiphysics multi-model simulation of large-area plasma chemical reactors.
In:
Proceedings of the ASME 2009 International Design Engineering Technical Conferences & Computers and Information in Engineering Conference (IDETC/CIE 2009), San Diego, CA, USA: Volume 2: 29th Computers and Information in Engineering Conference.
ISBN
9780791848999.
pp. 1195-1196 (DETC2009-87039).
-
PhD Thesis
E. Lorenz.
Multi-scale simulations with complex automata: in-stent restenosis and suspension flow.
Supervised by
P. M. A. Sloot and A. G. Hoekstra.
-
Article
-
Proceedings
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.
-
Article
G. Qiu, D. Kandhai, and P. M. A. Sloot.
Modeling options markets by focusing on active tradersr.
Procedia Computer Science
1(1), pp. 2457-2462.
-
Article
N. Zarrabi, E. Mancini, J. Tay, S. Shahand, and P. M. A. Sloot.
Modeling HIV-1 intracellular replication: two simulation approaches.
Procedia Computer Science
1(1), pp. 555-564.
-
Article
A. Hoekstra, L.-S. Luo, and M. Krafczyk.
Mesoscopic methods in engineering and science.
Computers & Mathematics with Applications
59(7), pp. 2139-2140.
-
Article
J.-L. Falcone, B. Chopard, and A. Hoekstra.
MML: towards a Multiscale Modeling Language.
Procedia Computer Science
1(1), pp. 819-826.
-
Chapter
J. L. Guisado, F. Jiménez-Morales, J. M. Guerra, F. Fernández de Vega, K. A. Iskra, P. M. A. Sloot, and D. Lombraña González.
Laser dynamics modelling and simulation: An application of dynamic load balancing of parallel cellular automata.
In:
Parallel and Distributed Computational Intelligence.
ISBN
9783642106750.
pp. 321-347.
-
Chapter
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
9783642122033.
pp. 1-16.
-
Book
P. M. A. Sloot, G. D. van Albada, and J. Dongarra.
International Conference on Computational Science, ICCS 2010.
-
Article
S. Jaeger, G. Ertaylan, D. van Dijk, U. Leser, and P. Sloot.
Inference of surface membrane factors of HIV-1 infection through functional interaction networks.
PLoS ONE
5(10), p. e13139.
-
Article
D. van Dijk, P. M. A. Sloot, J. C. Tay, and M. C. Schut.
Individual-based simulation of sexual selection: A quantitative genetic approach.
Procedia Computer Science
1(1), pp. 2003-2011.
-
Article
D. van Dijk, G. Ertaylan, C. A. B. Boucher, and P. M. A. Sloot.
Identifying potential survival strategies of HIV-1 through virus-host protein interaction networks.
BMC Systems Biology
4, p. 96.
-
PhD Thesis
-
PhD Thesis
D. J. Groen.
High performance N-body simulation on computational grids.
Supervised by
S. F. Portegies Zwart, P. M. A. Sloot, and E. P. J. van den Heuvel.
-
PhD Thesis
Y. Fomekong Nanfack.
Genetic regulatory networks inference : modeling, parameters estimation & model validation.
Supervised by
P. M. A. Sloot and J. A. Kaandorp.
-
Article
Q. C. Bui, B. Ó Nualláin, C. A. Boucher, and P. M. A. Sloot.
Extracting causal relations on HIV drug resistance from literature.
BMC Bioinformatics
11, p. 101.
-
Article
E. Zudilova-Seinstra, B. van Schooten, A. Suinesiaputra, R. van der Geest, B. van Dijk, J. Reiber, and P. Sloot.
Exploring individual user differences in the 2D/3D interaction with medical image data.
Virtual Reality
14(2), pp. 105-118.
-
Article
A. Sottoriva, P. M. A. Sloot, J. P. Medema, and L. Vermeulen.
Exploring cancer stem cell niche directed tumor growth.
Cell Cycle
9(8), pp. 1472-1479.
-
Article
E. V. Zudilova-Seinstra, P. J. H. de Koning, A. Suinesiaputra, B. W. van Schooten, R. J. van der Geest, J. H. C. Reiber, and P. M. A. Sloot.
Evaluation of 2D and 3D glove input applied to medical image analysis.
International Journal of Human-Computer Studies
68(6), pp. 355-369.
-
Book
J. A. Kaandorp, E. Meesters, R. Osinga, J. Verreth, and T. Wijgerde.
Euro ISRS symposium 2010: reefs in a changing environment: book of abstracts.
-
Article
S. Koulouzis, E. Zudilova-Seinstra, and A. Belloum.
Data transport between visualization web services for medical image analysis.
Procedia Computer Science
1(1), pp. 1721-1730.
-
Proceedings
D. Ivanov, I. Marinov, Y. Gorbachev, A. Smirnov, and V. Krzhizhanovskaya.
Computer simulation of laser annealing of a nanostructured surface.
In:
Proceedings of the ASME 2009 International Design Engineering Technical Conferences & Computers and Information in Engineering Conference (IDETC/CIE 2009), San Diego, CA, USA: Volume 2: 29th Computers and Information in Engineering Conference.
ISBN
9780791848999.
pp. 1197-1198 (DETC2009-87087).
-
Article
P. M. A. Sloot.
Computational science: A kaleidoscopic view into science.
Journal of Computational Science
1(4), p. 189.
-
Article
S. Mei, P. M. A. Sloot, R. Quax, Y. Zhu, and W. Wang.
Complex agent networks explaining the HIV epidemic among homosexual men in Amsterdam.
Mathematics and Computers in Simulation
80(5), pp. 1018-1030.
-
Chapter
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.
-
Article
D. Frentz, C. A. B. Boucher, M. Assel, A. De Luca, M. Fabbiani, F. Incardona, P. Libin, N. Manca, V. Müller, B. Ó Nualláin, R. Paredes, M. Prosperi, E. Quiros-Roldan, L. Ruiz, P. M. A. Sloot, C. Torti, A.-M. Vandamme, K. Van Laethem, M. Zazzi, and D. A. M. C. van de Vijver.
Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time.
PLoS ONE
5(7), p. e11505.
-
Article
A. Sottoriva, J. J. C. Verhoeff, T. Borovski, S. K. McWeeney, L. Naumov, J. P. Medema, P. M. A. Sloot, and L. Vermeulen.
Cancer stem cell tumor model reveals invasive morphology and increased phenotypical heterogeneity.
Cancer Research
70(1), pp. 46-56.
-
MSc Thesis
-
Article
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 - Statistical, Nonlinear, and Soft Matter Physics
82(3), p. 036703.
-
Article
M. C. F. Prosperi, M. Rosen-Zvi, A. Altman, M. Zazzi, S. Di Giambenedetto, R. Kaiser, E. Schülter, D. Struck, P. Sloot, D. A. van de Vijver, A.-M. Vandamme, and A. Sönnerborg.
Antiretroviral therapy optimisation without genotype resistance testing: a perspective on treatment history based models.
PLoS ONE
5(10), p. e13753.
-
Book
P. Bellavista, R.-S. Chang, H.-C. Chao, S.-F. Lin, and P. M. A. Sloot.
Advances in Grid and Pervasive Computing: 5th International Conference, GPC 2010, Hualien, Taiwan, May 10-13, 2010: Proceedings.
ISBN
9783642130663.
-
Article
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.
-
Article
D. Groen, S. Rieder, P. Grosso, C. de Laat, and S. Portegies Zwart.
A platform independent communication library for distributed computing.
Procedia Computer Science
1(1), pp. 2693-2700.
-
Proceedings
M. Gerhards, A. Belloum, F. Berretz, V. Sander, and S. Skorupa.
A history-tracing XML-based provenance framework for workflows.
In: 2010 5th Workshop on Workflows in Support of Large-Scale Science (WORKS).
ISBN 9781424489909.
-
Article
M. V. Filatov, J. A. Kaandorp, M. Postma, R. van Liere, K. J. Kruszyński, M. J. A. Vermeij, G. J. Streekstra, and R. P. M. Bak.
A comparison between coral colonies of the genus Madracis and simulated forms.
Proceedings of the Royal Society B-Biological Sciences
277(1700), pp. 3555-3561.
-
MSc Thesis
J. Daub.
A cell-based model of extracellular-matrix-guided endothelial cell migration during angiogenesis.
Supervised by
R. M. H. Merks and J. A. Kaandorp.
-
PhD Thesis
J. J. van der Ham.
A Semantic Model for Complex Computer Networks: The Network Description Language.
ISBN
978-90-814160-2-3.
Supervised by
P. M. A. Sloot and C. T. A. M. de Laat.
-
Article
N. Graf, A. Hoppe, E. Georgiadi, R. Belleman, C. Desmedt, D. Dionysiou, M. Erdt, J. Jacques, E. Kolokotroni, A. Lunzer, M. Tsiknakis, and G. Stamatakos.
‘In silico' oncology for clinical decision making in the context of nephroblastoma.
Klinische Pädiatrie
221(3), pp. 141-149.
-
Chapter
M. Bubak, M. Malawski, T. Gubala, M. Kasztelnik, P. Nowakowski, D. Harezlak, T. Bartynski, J. Kocot, E. Ciepiela, W. Funika, D. Krol, B. Balis, M. Assel, and A. Tirado-Ramos.
Virtual Laboratory for Collaborative Applications.
In: Handbook of research on computational grid technologies for life sciences, biomedicine, and healthcare.
ISBN 9781605663746.
pp. 531-551.
-
Article
R. J. Allison, S. P. Goodwin, R. J. Parker, S. F. Portegies Zwart, R. de Grijs, and M. B. N. Kouwenhoven.
Using the minimum spanning tree to trace mass segregation.
Monthly Notices of the Royal Astronomical Society
395(3), pp. 1449-1454.
-
Book
E. Zudilova-Seinstra, T. Adriaansen, and R. van Liere.
Trends in interactive visualization: State-of-the-art survey.
ISBN 9781848002685.
-
Proceedings
A. Caiazzo, D. Evans, J.-L. Falcone, J. Hegewald, E. Lorenz, B. Stahl, D. Wang, J. Bernsdorf, B. Chopard, J. Gunn, R. Hose, M. Krafczyk, P. Lawford, R. Smallwood, D. Walker, and A. G. Hoekstra.
Towards a Complex Automata multiscale model of in-stent restenosis.
In:
Computational Science – ICCS 2009.
ISBN
9783642019708.
I, pp. 705-714.
-
Proceedings
G. de Marchi, F. Paresce, and S. F. Portegies Zwart.
Time Evolution of the Stellar Mass Function of Galactic Clusters.
In: American Astronomical Society Meeting #213, #442.06 Abstracts.
American Astronomical Society Meeting Abstracts
41, p. 320.
-
Article
G. De Marchi, F. Paresce, and S. Portegies Zwart.
Time Evolution of the Stellar Mass Function of Galactic Clusters.
Bulletin - American Astronomical Society
41, p. 320.
-
Proceedings
J. Meizner, M. Malawski, S. Naqvi, and M. Bubak.
Threat model for MOCCA component environment.
In: Cracow'08 Grid Workshop: October 13-15, 2008 Cracow, Poland: proceedings.
ISBN 9788361433002.
pp. 94-102.
-
Proceedings
A. Tirado-Ramos and A. Shiflet.
Third Workshop on Teaching Computational Science (WTCS 2009).
In: Computational Science – ICCS 2009.
ISBN 9783642019739.
II, pp. 3-4.
-
Article
V. V. Korkhov, J. T. Moscicki, and V. V. Krzhizhanovskaya.
The user-level scheduling of divisible load parallel applications with resource selection and adaptive workload balancing on the Grid.
IEEE Systems Journal
3(1), pp. 121-130.
-
Article
S. F. Portegies Zwart.
The lost siblings of the Sun.
Astrophysical Journal Letters
696(1), pp. L13-L16.
-
Article
J. C. A. Miller-Jones, P. G. Jonker, G. Nelemans, S. Portegies Zwart, V. Dhawan, W. Brisken, E. Gallo, and M. P. Rupen.
The formation of the black hole in the X-ray binary system V404 Cyg.
Monthly Notices of the Royal Astronomical Society
394(3), pp. 1440-1448.
-
Article
E. Glebbeek, E. Gaburov, S. E. de Mink, O. R. Pols, and S. F. Portegies Zwart.
The evolution of runaway stellar collision products.
Astronomy & Astrophysics
497(1), pp. 255-264.
-
Report
G. S. Cook, R. G. Belleman, M. Scarpa, and C. T. A. M. de Laat.
The Cook Report on Internet Protocol on WiVR: a Window into Virtual Reality.
-
Report
G. S. Cook, R. G. Belleman, R. J. Strijkers, M. L. Cristea, R. J. Meijer, and C. T. A. M. de Laat.
The Cook Report on Internet Protocol on Interactive Networks (A User Interface for Appliction Owned Lightpath Networks).