Publications of the CSL group

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2011

• 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
• 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
• 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
• 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

2009

• 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 pp. 141-149.
  Abstract Citation Links
• 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. pp. 531-551.
  Citation Links
• 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 pp. 1449-1454.
  Abstract Citation Links
• 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. pp. 705-714.
  Abstract Citation Links
• 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.
  Citation Links
• 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. pp. 94-102.
  Citation
• Proceedings
  A. Tirado-Ramos and A. Shiflet. Third Workshop on Teaching Computational Science (WTCS 2009). In: Computational Science – ICCS 2009. pp. 3-4.
  Abstract Citation Links
• 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 pp. 121-130.
  Abstract Citation Links
• Article
  S. F. Portegies Zwart. The lost siblings of the Sun. Astrophysical Journal Letters pp. L13-L16.
  Abstract Citation Links
• 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 pp. 1440-1448.
  Abstract Citation Links
• 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 pp. 255-264.
  Abstract Citation Links
• 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.
  Citation
• 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).
  Citation
• Article
  M. Ashyraliyev, Y. Fomekong-Nanfack, J. A. Kaandorp, and J. G. Blom. Systems biology: parameter estimation for biochemical models. The FEBS Journal pp. 886-902.
  Abstract Citation Links
• Proceedings
  J. Kitowski, M. Tura\la, K. Wiatr, M. T. Bubak, A. Kusznir, J. Niwicki, T. Szepieniec, M. Radecki, A. Ozieblo, Z. Mosurska, A. Szymańska, K. Krawentek, and et al.. Structure and status of National Grid Initiative in Poland. In: Cracow'08 Grid Workshop: October 13-15, 2008 Cracow, Poland: proceedings. ISBN 978-83-61433-00-2. pp. 39-51.
  Citation
• Article
  V. Krzhizhanovskaya. Special section: Simulation of Multiphysics Multiscale Systems: Going Nano. Preface. International Journal for Multiscale Computational Engineering pp. vii-viii.
  Citation Links
• Article
  L. Smarr, M. Brown, and C. de Laat. Special section: OptIPlanet - The OptIPuter global collaboratory. Future Generation Computer Systems pp. 109-113.
  Abstract Citation Links
• Article
  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 p. 23.
  Abstract Citation Links
• Proceedings
  V. V. Krzhizhanovskaya and V. V. Korkhov. Simulation of plasma chemical processes on heterogeneous Grid resourses with adaptive load balancing for parallel solvers (Моделирование плазмохимических процессов на гетерогенных ресурсах Grid с адаптивной балансировкой нагрузки для параллельных солверов). In: Proceedings of the all-Russian supercomputer conference 'Scientific services on the Internet: Scalability, parallelism, efficiency'. pp. 351-352.
  Citation Links
• Other: misc
  V. V. Krzhizhanovskaya. Simulation of Multiphysics Multiscale Systems: Going Nano. International Journal for Multiscale Computational Engineering 7(1).
  Citation Links
• Other: misc
  V. V. Krzhizhanovskaya. Simulation of Multiphysics Multiscale Systems: Going Nano. International Journal for Multiscale Computational Engineering, Special Section 7(1), pp. vii-viii.
  Citation Links
• Proceedings
  V. V. Krzhizhanovskaya. Simulation of Multiphysics Multiscale Systems, 6th International Workshop. In: Computational Science – ICCS 2009. pp. 653-654.
  Abstract Citation Links
• Proceedings
  R. Quax, D. A. Bader, and P. M. A. Sloot. Simulating individual-based models of epidemics in hierarchical networks. In: Computational Science – ICCS 2009. pp. 725-734.
  Abstract Citation Links
• Article
  J. Cui, J. A. Kaandorp, O. O. Ositelu, V. Beaudry, A. Knight, Y. F. Nanfack, and K. W. Cunningham. Simulating calcium influx and free calcium concentrations in yeast. Cell Calcium pp. 123-132.
  Abstract Citation Links
• Chapter
  T. Gubala, M. Bubak, and P. M. A. Sloot. Semantic Integration for Research Environments. In: Handbook of research on computational grid technologies for life sciences, biomedicine, and healthcare. pp. 514-530.
  Citation Links
• Article
  E. Gaburov, S. Harfst, and S. Portegies Zwart. SAPPORO: A way to turn your graphics cards into a GRAPE-6. New Astronomy pp. 630-637.
  Abstract Citation Links
• Proceedings
  P. Bar, C. Coti, D. Groen, T. Herault, V. Kravtsov, A Schuster, and M. Swain. Running parallel applications with topology-aware grid middleware. In: Proceedings of the 2009 Fifth IEEE International Conference on e-Science. pp. 292-299.
  Abstract Citation Links
• Chapter
  E. V. Zudilova-Seinstra, T. Adriaansen, and R. van Liere. Overview of interactive visualization. In: Trends in interactive visualization. pp. 3-15.
  Abstract Citation Links
• Proceedings
  D. Groen, S. Harfst, and S. Portegies Zwart. On the origin of grid species: The living application. In: Computational Science – ICCS 2009. pp. 205-212.
  Abstract Citation Links
• PhD Thesis
  S. S. Msanjila. On inter-organizational trust engineering in networked collaborations: modeling and management of rational trust. ISBN 978-90-5776-196-6. Supervised by P. M. A. Sloot and H. Afsarmanesh.
  Citation Links
• Proceedings
  V. Krzhizhanovskaya. Multi-model multi-scale simulation of complex plasma chemical processes. In: EUCASS Aerospace Thematic Workshop on Fundamentals of Aerodynamic-Flow and Combustion Control by Plasmas, Les Houches, France.
  Citation
• MSc Thesis
  N. Zarrabi. Modeling and Simulation of HIV-1 Intracellular Replication. Supervised by P. M. A. Sloot.
  Citation Links
• Proceedings
  M. V. Baryshnikova and V. V. Krzhizhanovskaya. Model development of a PECVD reactor for titanium dioxide film deposition [in Russian]. In: International Conference "38th Science Week". pp. 56-57.
  Citation
• Chapter
  M. Postma and P. J. M. van Haastert. Mathematics of experimentally generated chemoattractant gradients. In: Chemotaxis: methods and protocols. pp. 473-488.
  Citation Links
• Article
  E. Lorenz, A. G. Hoekstra, and A. Caiazzo. Lees-Edwards boundary conditions for lattice Boltzmann suspension simulations. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics p. 036706.
  Abstract Citation Links
• Article
  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 p. 064036.
  Abstract Citation Links

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