Publications of the CSL group

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2011

• Article
  M. Sato, S. Matsuoka, G. D. van Albada, J. Dongarra, and P. M. A. Sloot. Preface. Procedia Computer Science pp. 1-6.
  Citation Links
• Proceedings
  R. Cushing, S. Koulouzis, A. S. Z. Belloum, and M. Bubak. Prediction-based auto-scaling of scientific workflows. In: Proceedings of the 9th International Workshop on Middleware for Grids, Clouds and e-Science: MGC 2011, co-located with ACM/IFIP/USENIX 12th International Middleware Conference, December 12-16, 2011, Lisbon, Portugal. p. 1.
  Abstract Citation Links
• MSc Thesis
  F. Speelman. Position-Based Quantum Cryptography and the Garden-Hose Game. Supervised by H. Buhrman and C. Schaffner.
  Citation Links
• MSc Thesis
  J. Teunissen. Particle based 3D modeling of positive streamer inception. Supervised by U. Ebert.
  Citation Links
• Article
  V. V. Krzhizhanovskaya. Overstromingsrisico's in Kaart Brenger met de HPC Cloud. "High Performance Computing E-Science Support", SARA Jaarverslag 2010 pp. 38-38.
  Citation
• Chapter
  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. pp. 63-93.
  Citation Links
• Article
  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 pp. 365-373.
  Abstract Citation Links
• PhD Thesis
  L. A. Naumov. Modelling with cellular automata: problem solving environments and multidimensional applications. Supervised by P. M. A. Sloot and A. G. Hoekstra.
  Abstract Citation
• Article
  C. Tamulonis, M. Postma, and J. Kaandorp. Modeling filamentous cyanobacteria reveals the advantages of long and fast trichomes for optimizing light exposure. PLoS ONE .
  Abstract Citation Links
• Article
  A. L. Pyayt, I. I. Mokhov, B. Lang, V. V. Krzhizhanovskaya, and R. J. Meijer. Machine learning methods for environmental monitoring and flood protection. World Academy of Science, Engineering and Technology. Proceedings pp. 118-123.
  Abstract Citation Links
• Proceedings
  A. L. Pyayt, I. I. Mokhov, B. Lang, V. V. Krzhizhanovskaya, and R. J. Meijer. Machine Learning Methods for Environmental Monitoring and Flood Protection. World Academy of Science, Engineering and Technology 78, pp. 118-123.
  Citation Links
• Article
  A. Mei Shan, R. Quax, D. van de Vijver, Y. Zhu, and P. M. A. Sloot. Increasing risk behaviour can outweigh the benefits of antiretroviral drug treatment on the HIV incidence among men-having-sex-with-men in Amsterdam. BMC Infectious Diseases .
  Abstract Citation Links
• Proceedings
  M. Gerhards, V. Sander, A. Belloum, D. Vasunin, and A. Benabdelkader. HisT/PLIER: A two-fold Provenance Approach for Grid-enabled Scientific Workflows using WS-VLAM. In: 2011 12th IEEE/ACM International Conference on Grid Computing : Grid 2011. pp. 224-225.
  Abstract Citation Links
• Article
  E. Lorenz and A. G. Hoekstra. Heterogeneous multiscale simulations of suspension flow. Multiscale Modeling & Simulation pp. 1301-1326.
  Abstract Citation Links
• Article
  C. A. D. Leguy, E. M. H. Bosboom, A. S. Z. Belloum, A. P. G. Hoeks, and F. N. van de Vosse. Global sensitivity analysis of a wave propagation model for arm arteries. Medical Engineering & Physics pp. 1008-1016.
  Abstract Citation Links
• Proceedings
  B. Pengel, G. S. Shirshov, V. V. Krzhizhanovskaya, A. R. Koelewijn, I. I. Mokhov, A. L. Pyayt, and N. B. Melnikova. Flood early warning system: sensors and internet. In: Abstract proceedings: 5th International CConference on Flood Management (ICFM5): Floods: from Risk to Opportunity: 27 to 29 September 2011, Tokyo-Japan. pp. 212-221.
  Citation Links
• Article
  V. V. Krzhizhanovskaya, G. S. Shirshov, N. B. Melnikova, R. G. Belleman, F. I. Rusadi, B. J. Broekhuijsen, B. P. Gouldby, J. Lhomme, B. Balis, M. Bubak, A. L. Pyayt, I. I. Mokhov, A. V. Ozhigin, B. Lang, and R. J. Meijer. Flood early warning system: design, implementation and computational modules. Procedia Computer Science pp. 106-115.
  Abstract Citation Links
• Proceedings
  P. Ramos-Silva, C. Combet, F. Marin, and J. A. Kaandorp. Finding patterns and differences on biomineralization-related proteins from Metazoans. In: Molecular iomineralization in marine organisms: Nanobiotechnology and biomedical application. p. 21.
  Citation Links
• Proceedings
  Q. C. Bui and P. M. A. Sloot. Extracting biological events from text using simple syntactic patterns. In: Proceedings of BioNLP Shared Task 2011 Workshop: Portland, Oregon, USA, 24 June, 2011. pp. 143-146.
  Abstract Citation Links
• MSc Thesis
  J. Jänes. Efficient integration of multiscale N-body systems. Supervised by F. I. Pelupessy and S. F. Portegies Zwart.
  Citation Links
• Proceedings
  R. Cushing, S. Koulouzis, A. Belloum, and M. Bubak. Dynamic handling for cooperating scientific web services. In: Proceedings 2011 IEEE Seventh International Conference on eScience: 5-8 December 2011, Stockholm, Sweden. pp. 232-239.
  Abstract Citation Links
• Other: misc
  M. C. F. Prosperi, M. Rosen-Zvi, A. Altmann, M. Zazzi, S. Di Giambenedetto, R. Kaiser, E. Schülter, D. Struck, P. M. A. Sloot, D. A. M. C. van de Vijver, A.-M. Vandamme, and A. Sönnerborg. Correction: Antiretroviral Therapy Optimisation without Genotype Resistance Testing: A Perspective on Treatment History Based Models. PLoS ONE 6(4).
  Citation Links
• MSc Thesis
  H. Þorsdottir. Conservation Properties of the Hamiltonian Particle-Mesh method for the Quasi-Geostrophic Equations on a sphere. Supervised by J. Frank.
  Citation Links
• PhD Thesis
  İ. Altıntaş. Collaborative provenance for workflow-driven science and engineering. Supervised by P. M. A. Sloot and B. Ludäscher.
  Abstract Citation
• Article
  A. Belloum, M. A. Inda, D. Vasunin, V. Korkhov, Z. Zhao, H. Rauwerda, T. M. Breit, M. Bubak, and L. O. Hertzberger. Collaborative e-Science Experiments and Scientific Workflows. IEEE Internet Computing pp. 39-47.
  Abstract Citation Links
• Article
  S. Murtaza, A. G. Hoekstra, and P. M. A. Sloot. Cellular automata simulations on a FPGA cluster. International Journal of High Performance Computing Applications pp. 193-204.
  Abstract Citation Links
• Article
  L. Naumov, A. Hoekstra, and P. Sloot. Cellular automata models of tumour natural shrinkage. Physica A : Statistical Mechanics and its Applications pp. 2283-2290.
  Abstract Citation Links
• Article
  V. V. Krzhizhanovskaya. Better Flood Protection thanks to SARA's HPC Cloud. "High Performance Computing E-Science Support", SARA Annual Report 2010 pp. 39-39.
  Citation
• Proceedings
  A. L. Pyayt, I. I. Mokhov, A. Kozionov, V. Kusherbaeva, N. B. Melnikova, V. V. Krzhizhanovskaya, and R. J. Meijer. Artificial intelligence and finite element modelling for monitoring flood defence structures. In: EESMS 2011 proceedings.
  Abstract Citation Links
• Proceedings
  A. L. Pyayt, I. I. Mokhov, A. Kozionov, V. Kusherbaeva, N. B. Melnikova, V. V. Krzhizhanovskaya, and R. J. Meijer. Artificial Intelligence and Finite Element Modelling for Monitoring Flood Defence Structures.
  Citation Links
• Proceedings
  D. Botman and J. A. Kaandorp. An integrated approach to infer the gene network in early development of the cnidarian Nematostella vectensis..
  Citation Links
• Proceedings
  F. Berretz, S. Skorupa, V. Sander, A. Belloum, and M. Bubak. Actor-driven workflow execution in distributed environments. In: Euro-Par 2010 Parallel Processing Workshops. pp. 287-294.
  Abstract Citation Links
• Proceedings
  J. A. Kaandorp, C. Cronemberger, and L. Huisman. A spatial model of calcification in scleractinian corals. In: Molecular iomineralization in marine organisms: Nanobiotechnology and biomedical application. p. 14.
  Abstract Citation Links
• Article
  A. Bankhead, E. Mancini, A. C. Sims, R. S. Baric, S. McWeeney, and P. M. A. Sloot. A simulation framework to investigate in vitro viral infection dynamics. Procedia Computer Science pp. 1798-1807.
  Abstract Citation Links
• Proceedings
  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. pp. 97-104.
  Abstract Citation Links
• PhD Thesis
  G. Ertaylan. A multi-scale approach for deciphering HIV infection. Supervised by P. M. A. Sloot.
  Abstract Citation
• Article
  Q. C. Bui, S. Katrenko, and P. M. A. Sloot. A hybrid approach to extract protein-protein interactions. Bioinformatics pp. 259-265.
  Abstract Citation Links
• Proceedings
  B. Chopard, J.-L. Falcone, A. G. Hoekstra, and J. Borgdorff. A framework for multiscale and multiscience modeling and numerical simulations. In: Unconventional Computation. pp. 2-8.
  Abstract Citation Links
• Article
  I. Altintas, M. K. Anand, T. N. Vuong, S. Bowers, B. Ludäscher, and P. M. A. Sloot. A data model for analyzing user collaborations in workflow-driven e-Science. The International Journal of Computers and Their Applications (IJCA) pp. 160-179.
  Abstract Citation Links
• Article
  C. Tamulonis, M. Postma, H. Q. Marlow, C. R. Magie, J. de Jong, and J. Kaandorp. A cell-based model of Nematostella vectensis gastrulation including bottle cell formation, invagination and zippering. Developmental Biology pp. 217-228.
  Abstract Citation Links
• Proceedings
  N. Javaheri, C. M. Cronemberger, and J. Kaandorp. A Particle-Based Model for Aggregate Formation in Biomineralization. In: Molecular iomineralization in marine organisms: Nanobiotechnology and biomedical application. p. 23.
  Citation Links
• Article
  I. Altintas, M. K. Anand, T. Vuong, S. Bowers, B. Ludäscher, and P. M. A. Sloot. A Data Model for Analyzing User Collaborations in Workflow-Driven eScience. The International Journal of Computers and Their Applications (IJCA) 18(3), pp. 160-179.
  Citation Links
• Article
  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. Hoekstra. A Complex Automata approach for in-stent restenosis: two-dimensional multiscale modelling and simulations. Journal of Computational Science pp. 9-17.
  Abstract Citation Links

2010

• Article
  R. G. Belleman. Visualization in computational science. Procedia Computer Science pp. 1689-1690.
  Abstract Citation Links
• 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.
  Abstract Citation
• 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. pp. 42-58.
  Abstract Citation Links
• 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.
  Abstract Citation Links
• 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. pp. 611-616.
  Abstract Citation Links
• 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 pp. 185-193.
  Abstract Citation Links
• 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 pp. 971-978.
  Abstract Citation Links
• Article
  P. M. A. Sloot. The cross-disciplinary road to true computational science. Journal of Computational Science p. 131.
  Citation Links
• 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.
  Abstract Citation Links
• Article
  V. Krzhizhanovskaya. Simulation of Multiphysics Multiscale Systems, 7th International Workshop. Procedia Computer Science pp. 603-605.
  Abstract Citation Links
• 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 pp. 63-70.
  Abstract Citation Links
• 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. pp. 111-127.
  Citation Links
• 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 pp. 1072-1090.
  Abstract Citation Links
• 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 pp. 1675-1682.
  Abstract Citation Links
• 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 pp. 14173-14182.
  Abstract Citation Links
• 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. pp. 258-264.
  Abstract Citation Links
• Article
  P. M. A. Sloot, G. D. van Albada, and J. Dongarra. Preface. Procedia Computer Science pp. 1-2.
  Citation Links
• 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 pp. 1104-1115.
  Abstract Citation Links
• 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 pp. 2596-2607.
  Abstract Citation Links
• 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.
  Abstract Citation Links
• 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.
  Abstract Citation Links
• 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. pp. 1195-1196 (DETC2009-87039).
  Abstract Citation Links
• 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.
  Citation
• Article
  P. M. A. Sloot and A. G. Hoekstra. Multi-scale modelling in computational biomedicine. Briefings in Bioinformatics pp. 142-152.
  Abstract Citation Links
• 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.
  Abstract Citation Links
• Article
  G. Qiu, D. Kandhai, and P. M. A. Sloot. Modeling options markets by focusing on active tradersr. Procedia Computer Science pp. 2457-2462.
  Abstract Citation Links
• 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 pp. 555-564.
  Abstract Citation Links
• Article
  A. Hoekstra, L.-S. Luo, and M. Krafczyk. Mesoscopic methods in engineering and science. Computers & Mathematics with Applications pp. 2139-2140.
  Citation Links
• Article
  J.-L. Falcone, B. Chopard, and A. Hoekstra. MML: towards a Multiscale Modeling Language. Procedia Computer Science pp. 819-826.
  Abstract Citation Links
• 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. pp. 321-347.
  Abstract Citation Links
• 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. pp. 1-16.
  Abstract Citation Links
• 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 p. e13139.
  Abstract Citation Links
• 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 pp. 2003-2011.
  Abstract Citation Links
• 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 p. 96.
  Abstract Citation Links
• PhD Thesis
  S. Murtaza. High performance reconfigurable computing with cellular automata. Supervised by P. M. A. Sloot and A. G. Hoekstra.
  Citation
• 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.
  Abstract Citation
• PhD Thesis
  Y. Fomekong Nanfack. Genetic regulatory networks inference : modeling, parameters estimation & model validation. Supervised by P. M. A. Sloot and J. A. Kaandorp.
  Citation
• 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 p. 101.
  Abstract Citation Links
• 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 pp. 105-118.
  Abstract Citation Links
• Article
  A. Sottoriva, P. M. A. Sloot, J. P. Medema, and L. Vermeulen. Exploring cancer stem cell niche directed tumor growth. Cell Cycle pp. 1472-1479.
  Abstract Citation Links
• 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 pp. 355-369.
  Abstract Citation Links
• Article
  S. Koulouzis, E. Zudilova-Seinstra, and A. Belloum. Data transport between visualization web services for medical image analysis. Procedia Computer Science pp. 1721-1730.
  Abstract Citation Links
• 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. pp. 1197-1198 (DETC2009-87087).
  Abstract Citation Links
• Article
  P. M. A. Sloot. Computational science: A kaleidoscopic view into science. Journal of Computational Science p. 189.
  Citation Links
• 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 pp. 1018-1030.
  Abstract Citation Links
• 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. pp. 29-57.
  Abstract Citation Links
• 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 p. e11505.
  Abstract Citation Links
• 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 pp. 46-56.
  Abstract Citation Links
• MSc Thesis
  T. Wood. Applications of GPUs in Computational Finance. Supervised by R. G. Belleman and B. D. Kandhai.
  Citation Links
• 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 p. 036703.
  Abstract Citation Links
• 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 p. e13753.
  Abstract Citation Links
• 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 p. 041585.
  Abstract Citation Links
• 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 pp. 2693-2700.
  Abstract Citation Links
• 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).
  Abstract Citation Links
• 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 pp. 3555-3561.
  Abstract Citation Links
• 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.
  Citation Links
• 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.
  Citation Links

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