Publications of the CSL group

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2013

• Article
  N. Toth, L. Gulyas, R. O. Legendi, P. Duijn, P. M. A. Sloot, and G. Kampis. The importance of centralities in dark network value chains. The European Physical Journal - Special Topics 222(6), pp. 1413-1439.
  Abstract Citation Links
• Article
  R. Quax, A. Apolloni, and P. M. A. Sloot. The diminishing role of hubs in dynamical processes on complex networks. Journal of the Royal Society Interface 10(88), 20130568.
  Abstract Citation Links
• Article
  V. S. Lebanin, V. V. Krzhizhanovskaya, and S. E. Alexandrov. The dependence of the rate constant of the interaction between two excited particles on the excitation energy and temperature. Verification of the model with examples transfer of electronic excitation energy of the argon atom and the nitrogen molecule in the reaction of dissociation of nitrogen atom of argon. Technical Physics Letters .
  Citation
• PhD Thesis
  P. Sequeira dos Ramos Silva. The biocalcification of mollusk shells and coral skeletons: Integrating molecular, proteomics and bioinformatics methods. ISBN 9789810785635. Supervised by P. M. A. Sloot, J. A. Kaandorp, and F. G. Marin.
  Abstract Citation
• Article
  T. Ishiyama, S. Rieder, J. Makino, S. Portegies Zwart, D. Groen, K. Nitadori, C. de Laat, S. McMillan, K. Hiraki, and S. Harfst. The Cosmogrid simulation: Statistical properties of small dark matter halos. Astrophysical Journal 767(2), 146.
  Abstract Citation Links
• Article
  I. Bartha, M. Assel, P. M. A. Sloot, M. Zazzi, C. Torti, E. Schülter, A. De Luca, A. Sönnerborg, A. B. Abecasis, K. Van Laethem, A. Rosi, J. Svärd, R. Paredes, D. A. M. C. van de Vijver, A.-M. Vandamme, and V. Müller. Superinfection with drug-resistant HIV is rare and does not contribute substantially to therapy failure in a large European cohort. BMC Infectious Diseases 13, p. 537.
  Abstract Citation Links
• Article
  A. Czaplicka, J. A. Hołyst, and P. M. A. Sloot. Stochastic resonance for information flows on hierarchical networks. The European Physical Journal - Special Topics 222(6), pp. 1335-1345.
  Abstract Citation Links
• MSc Thesis
  J. Hofman. SPVAs: Grid GPU Implementation \& Risk Assessment of Investment Strategies. Supervised by B. D. Kandhai, D. Schrager, and V. Sergeev.
  Citation
• Article
  J. T. I. Tanzil, B. E. Brown, R. P. Dunne, J. N. Lee, J. A. Kaandorp, and P. A. Todd. Regional decline in growth rates of massive Porites corals in Southeast Asia. Global Change Biology 19(10), pp. 3011-3023.
  Abstract Citation Links
• Article
  P. Libin, G. Beheydt, K. Deforche, S. Imbrechts, F. Ferreira, K. Van Laethem, K. Theys, A. P. Carvalho, J. Cavaco-Silva, G. Lapadula, C. Torti, M. Assel, S. Wesner, J. Snoeck, J. Ruelle, A. de Bel, P. Lacor, P. de Munter, E. van Wijngaerden, M. Zazzi, R. Kaiser, A. Ayouba, M. Peeters, T. de Oliveira, L. C. J. Alcantara, Z. Grossman, P. Sloot, D. Otelea, S. Paraschiv, C. Boucher, R. J. Camacho, and A.-M. Vandamme. RegaDB: Community-driven data management and analysis for infectious diseases. Bioinformatics 29(11), pp. 1477-1480.
  Abstract Citation Links
• Article
  L. B. Carey, D. van Dijk, P. M. A. Sloot, J. A. Kaandorp, and E. Segal. Promoter sequence determines the relationship between expression level and noise. PLoS Biology 11(4), e1001528.
  Abstract Citation Links
• Proceedings
  V. Alexandrov, M. Lees, V. Krzhizhanovskaya, J. Dongarra, and P. M. A. Sloot. Proceedings of the International Conference on Computational Science, ICCS 2013. Procedia Computer Science 18.
  Citation Links
• Article
  A. Afanasyeva, S. Ponyaev, and V. Krgiganovskaya. Numerical simulation of synthesis of fullerenes by the arc discharge method. Journal of Physics. Conference Series 461, 012043.
  Abstract Citation Links
• Article
  A. Czaplicka, J. A. Holyst, and P. M. A. Sloot. Noise enhances information transfer in hierarchical networks. Scientific Reports 3, 1223.
  Abstract Citation Links
• Article
  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.
  Abstract Citation Links
• MSc Thesis
  A. M. Abdol. Multi-objective optimization approach to infer Drosophila gene regulatory parameters. Supervised by J. A. Kaandorp and F. R. Jansson.
  Citation
• Article
  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.
  Abstract Citation Links
• Article
  A. S. Afanasieva, S. A. Ponyaev, and V. V. Krzhizhanovskaya. Modelling processes in the shock tube experiments with ignition of combustible gas mixtures. Technical Physics Letters .
  Citation
• Proceedings
  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.
  Citation
• Article
  N. Chindapol, J. A. Kaandorp, C. Cronemberger, T. Mass, and A. Genin. Modelling growth and form of the scleractinian coral Pocillopora verrucosa and the influence of hydrodynamics. PLoS Computational Biology 9(1), e1002849.
  Abstract Citation Links
• PhD Thesis
  H. Tahir. Modelling and simulating the dynamics of in-stent restenosis in porcine coronary arteries. Supervised by P. M. A. Sloot and A. G. Hoekstra.
  Abstract Citation
• Article
  N. B. Melnikova, V. V. Krzhizhanovskaya, and P. M. A. Sloot. Modeling earthen dikes using real-time sensor data. Journal of Hydrology 496, pp. 154-165.
  Abstract Citation Links
• Article
  N. B. Melnikova, V. V. Krzhizhanovskaya, and P. M. A. Sloot. Modeling Earthen Dike Stability: Sensitivity Analysis and Automatic Calibration of Diffusivities Based on Live Sensor Data. Journal of Hydrology .
  Citation Links
• Chapter
  N. Javaheri, C. M. Cronemberger, and J. A. Kaandorp. Modeling Biosilicification at Subcellular Scales. In: Biomedical Inorganic Polymers. ISBN 9783642410048. pp. 117-141.
  Abstract Citation Links
• Article
  J. A. Kaandorp. Macroscopic modelling of environmental influence on growth and form of sponges and corals using the accretive growth model. ISRN Biomathematics 2013, p. 159170.
  Abstract Citation Links
• Proceedings
  J. Simm, D. Jordan, A. Topple, I. Mokhov, A. Pyayt, T. Abdoun, V. Bennett, J. Broekhuijsen, and R. Meijer. Interpreting sensor measurements in dikes - experiences from UrbanFlood pilot sites. In: Comprehensive Flood Risk Management: research for policy and practice. ISBN 9780203374511. pp. 81-82.
  Abstract Citation Links
• Book
  V. Alexandrov, M. Lees, V. Krzhizhanovskaya, J. Dongarra, and P. M. A. Sloot. International Conference on Computational Science, ICCS 2013: Barcelona, Spain, June 5- June 7, 2013.
  Citation Links
• Proceedings
  A. P. Kozionov, A. L. Pyayt, and V. T. Kusherbaeva. Intelligent signal processing for dike health monitoring. In: Automation & control: proceedings of the International Conference of Young Scientists, St. Petersburg, Russia, 21-22 November 2013. ISBN 9785742241645. pp. 188-193.
  Citation
• PhD Thesis
  R. Quax. Information processing in complex networks. Supervised by P. M. A. Sloot.
  Abstract Citation
• Article
  R. Quax, D. Kandhai, and P. M. A. Sloot. Information dissipation as an early-warning signal for the Lehman Brothers collapse in financial time series. Scientific Reports 3, 1898.
  Abstract Citation Links
• Article
  R. Quax, D. A. M. C. van de Vijver, D. Frentz, and P. M. A. Sloot. Inferring epidemiological parameters from phylogenetic information for the HIV-1 epidemic among MSM. The European Physical Journal - Special Topics 222(6), pp. 1347-1358.
  Abstract Citation Links
• Proceedings
  H. Tahir, C. Bona-Casas, and A. G. Hoekstra. In-stent restenosis patterns based on the origin of endothelium recovery.
  Citation Links
• MSc Thesis
  J. Hofmann. Heterogeneous Multiscale Simulations of Blood Flow. Supervised by A. G. Hoekstra and E. Lorenz.
  Citation Links
• MSc Thesis
  A. Theiakos. GPU-based hedging of a mortgage portfolio using Monte-Carlo and finite difference methods. Supervised by B. D. Kandhai, J. Tas, and H. van der Lem.
  Citation Links
• Article
  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.
  Abstract Citation Links
• MSc Thesis
  S. van Geldermalsen. FlowCL -- Declarative dataflow API for heterogeneous platform computing. Supervised by S. Olabarriaga, A. S. Z. Belloum, and H. Marquering.
  Citation Links
• Chapter
  B. E. Pengel, V. V. Krzhizhanovskaya, N. B. Melnikova, G. S. Shirshov, A. R. Koelewijn, A. L. Pyayt, and I. I. Mokhov. Flood early warning system: sensors and internet. In: Floods: from risk to opportunity. ISBN 9781907161353. pp. 445-453.
  Abstract Citation Links
• Article
  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.
  Abstract Citation Links
• Proceedings
  C. Bona-Casas, J. Borgdorff, H. Tahir, and A. G. Hoekstra. First results on a 3D model for in-stent restenosis.
  Citation Links
• MSc Thesis
  C. Chen. Explicit modelling of membrane-bound structures in the cellular Potts model. Supervised by R. M. H. Merks and J. A. Kaandorp.
  Citation
• MSc Thesis
  L. J. Dijkstra. Essays in Computational Science. Supervised by P. M. A. Sloot.
  Citation
• PhD Thesis
  J. T. I. Tanzil. Environmental controls of coral growth: Data driven multi-scale analyses of rates and patterns of growth in massive Porites corals around the Thai-Malay Peninsula. ISBN 9789810783372. Supervised by P. M. A. Sloot and J. A. Kaandorp.
  Abstract Citation
• Article
  V. V. Krzhizhanovskaya, N. B. Melnikova, A. M. Chirkin, S. V. Ivanov, A. V. Boukhanovsky, and P. M. A. Sloot. Distributed Simulation of City Inundation by Coupled Surface and Subsurface Porous Flow for Urban Flood Decision Support System. Procedia Computer Science 18, pp. 1046-1056.
  Abstract Citation Links
• Article
  M. Ben Belgacem, B. Chopard, J. Borgdorff, M. Mamoński, K. Rycerz, and D. Harezlak. Distributed Multiscale Computations using the MAPPER framework. Procedia Computer Science 18, pp. 1106-1115.
  Abstract Citation Links
• Article
  B. E. Nichols, C. A. B. Boucher, J. H. van Dijk, P. E. Thuma, J. L. Nouwen, R. Baltussen, J. van de Wijgert, P. M. A. Sloot, and D. A. M. C. van de Vijver. Cost-effectiveness of Pre-Exposure Prophylaxis (PrEP) in preventing HIV-1 infections in rural Zambia: a modeling study. PLoS ONE 8(3), e59549.
  Abstract Citation Links
• Article
  V. Alexandrov, M. Lees, V. Krzhizhanovskaya, J. Dongarra, and P. M. A. Sloot. Computation at the Frontiers of Science, preface for ICCS 2013. Procedia Computer Science 18, pp. 1-9.
  Citation Links
• PhD Thesis
  N. Zarrabi. Complex networks and agent-based models of HIV epidemic. Supervised by P. M. A. Sloot.
  Abstract Citation
• Article
  N. Zarrabi, M. C. F. Prosperi, R. G. Belleman, S. Di Giambenedetto, M. Fabbiani, A. De Luca, and P. M. A. Sloot. Combining social and genetic networks to study HIV transmission in mixing risk groups. The European Physical Journal - Special Topics 222(6), pp. 1377-1387.
  Abstract Citation Links
• PhD Thesis
  C. V. T. Tamulonis. Cell-based models. Supervised by P. M. A. Sloot and J. A. Kaandorp.
  Citation
• Article
  A. Adamatzky, M. Lees, and P. Sloot. Bio-development of motorway networks in the Netherlands: a slime mould approach. Advances in Complex Systems 16(02n03), 1250034.
  Abstract Citation Links
• Proceedings
  V. V. Krzhizhanovskaya, N. B. Melnikova, P. M. A. Sloot, and A. A. Mordvintsev. Assessment of Flood Fatality Risks by Simulation of City Evacuation Coupled to the Inundation Dynamics with Surface and Subsurface Flows. In: Book of abstracts of the 22nd SRA-E conference "Safe Societies. Coping with Complexity and Major Risk". pp. 71-71.
  Citation Links
• Article
  A. Adamatzky, S. Akl, R. Alonso-Sanz, W. van Dessel, Z. Ibrahim, A. Ilachinski, J. Jones, A. V. D. M. Kayem, G. J. Martínez, P. de Oliveira, M. Prokopenko, T. Schubert, P. Sloot, E. Strano, and X.-S. Yang. Are motorways rational from slime mould's point of view?. International Journal of Parallel, Emergent and Distributed Systems 28(3), pp. 230-248.
  Abstract Citation Links
• Proceedings
  C. Bona-Casas, J. Borgdorff, H. Tahir, and A. G. Hoekstra. An off-lattice 3D model for in-stent restenosis.
  Citation
• Article
  A. L. Pyayt, A. P. Kozionov, I. I. Mokhov, B. Lang, V. V. Krzhizhanovskaya, and P. M. A. Sloot. An Approach for Real-time Levee Health Monitoring Using Signal Processing Methods. Procedia Computer Science 18, pp. 2357-2366.
  Abstract Citation Links
• Article
  P. M. A. Sloot, G. Kampis, and L. Gulyás. Advances in dynamic temporal networks: understanding the temporal dynamics of complex adaptive networks. The European Physical Journal - Special Topics 222(6), pp. 1287-1293.
  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. Journal of Computational Science 4(3), pp. 127-134.
  Abstract Citation Links
• Proceedings
  H. Aydt, Y. Xu, M. Lees, and A. Knoll. A Multi-threaded Execution Model for the Agent-based SEMSim Traffic Simulation. In: AsiaSim 2013. ISBN 9783642450372. pp. 1-12.
  Abstract Citation Links
• MSc Thesis
  J. Tyree. A Linear Boundary for the Heston Model With Parallel ADI Finite Differencing on GPUs. Supervised by B. D. Kandhai.
  Citation Links

2012

• Article
  G. Qiu, D. Kandhai, N. F. Johnson, and P. M. A. Sloot. Understanding complex dynamics in derivatives finance: why do options markets smile?. Advances in Complex Systems 15(5), 1250050.
  Abstract Citation Links
• Article
  J. U. Hammel, M. V. Filatov, J. Herzen, F. Beckmann, J. A. Kaandorp, and M. Nickel. The non-hierarchical, non-uniformly branching topology of a leuconoid sponge aquiferous system revealed by 3D reconstruction and morphometrics using corrosion casting and X-ray microtomography. Acta Zoologica 93(2), pp. 160-170.
  Abstract Citation Links
• Article
  D. Botman and J. A. Kaandorp. Spatial gene expression quantification: a tool for analysis of in situ hybridizations in sea anemone Nematostella vectensis. BMC Research Notes 5, p. 555.
  Abstract Citation Links
• Proceedings
  A. Mordvintsev, V. Krzhizhanovskaya, M. Lees, and P. Sloot. Simulation of city evacuation coupled to flood dynamics. In: PED 2012: accompanying booklet: abstracts of all presentations and posters: 6th International Conference on Pedestrian and Evacuation Dynamics. pp. [156-158].
  Citation
• Proceedings
  S. A. Konakov and V. V. Krzhizhanovskaya. Simualtion of aminosilane radical formation mechanism in PECVD technology of silicon nitride deposition from nitrogen with a small silane admixture. In: Proceedings of the International conference "The 41st Science Week". 6, pp. 132-135.
  Citation Links
• Proceedings
  A. L. Pyayt, I. I. Mokhov, A. P. Kozionov, V. T. Kusherbaeva, V. V. Krzhizhanovskaya, B. J. Broekhuijsen, and R. J. Meijer. Signal Processing Methods for Flood Early Warning Systems. In: Proceedings of 10th International Conference on Hydroinformatics 2012: Hamburg, Germany. ISBN 9783941492455.
  Abstract Citation
• Proceedings
  R. Cushing, S. Koulouzis, R. Strijkers, A. S. Z. Belloum, and M. Bubak. Service Level Management for executable papers. In: Euro-Par 2011: Parallel Processing Workshops. ISBN 9783642297403. 2, pp. 116-123.
  Abstract Citation Links
• PhD Thesis
  Q. C. Bui. Relation extraction methods for biomedical literature. ISBN 9789064645785. Supervised by P. M. A. Sloot.
  Abstract Citation
• Book
  H. Ali, Y. Shi, D. Khazanchi, M. Lees, G. D. van Albada, J. Dongarra, and P. M. A. Sloot. Proceedings of the International Conference on Computational Science, ICCS 2012.
  Citation Links
• Chapter
  A. Adamatzky, M. Lees, and P. M. A. Sloot. Physarum in the Netherlands: responding to the flood. In: Bioevaluation of world transport networks. ISBN 9789814407038. pp. 213-234.
  Citation Links
• Proceedings
  S. Varma, M. C. Villa Uriol, P. Lamata, E. Schileo, B. Ó Nualláin, J. Fenner, N. S. H. Smith, and D. R. Hose. Patient-Centred Multi-scale Computational Workflows. In: VPH Conference 2012, London.
  Citation
• Proceedings
  T. Szepieniec, J. Kocot, T. Schaaf, O. Appleton, M. Heikkurinen, A. S. Z. Belloum, J. Serrat-Fernández, and M. Metzker. On importance of Service Level Management in Grids. In: Euro-Par 2011: Parallel Processing Workshops. ISBN 9783642297403. 2, pp. 64-75.
  Abstract Citation Links
• Article
  P. Ramos-Silva, S. Benhamada, N. Le Roy, B. Marie, N. Guichard, I. Zannella-Cléon, L. Plasseraud, M. Corneillat, G. Alcaraz, J. Kaandorp, and F. Marin. Novel molluskan biomineralization proteins retrieved from proteomics: a case study with Upsalin. ChemBioChem 13(7), pp. 1067-1078.
  Abstract Citation Links
• Article
  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.
  Citation Links
• Proceedings
  J. A. Kaandorp, D. Botman, C. Tamulonis, and R Dries. Multi-scale modeling of gene regulation of morphogenesis. In: How the World Computes. ISBN 9783642308703. pp. 355-362.
  Abstract Citation Links
• Proceedings
  V. V. Krzhizhanovskaya and N. B. Melnikova. Modeling earthen dikes: sensitivity analysis and calibration of soil properties based on sensor data. In: Proceedings of the 12th International Conference on Computational and Mathematical Methods in Science and Engineering: Murcia, Spain, July 2-5, 2012: CMMSE. - Vol. 4. ISBN 9788461553921. pp. 1414-1424.
  Citation Links
• Article
  R. Quax, A. Apolloni, and P. M. A. Sloot. Information processing reveals how microscopic components affect the macroscopic system-state in complex networks. Scientific Reports .
  Citation Links
• Article
  P. M. A. Sloot and R. Quax. Information processing as a paradigm to model and simulate complex systems. Journal of Computational Science 3(5), pp. 247-249.
  Citation Links
• Article
  E. Mancini, F. Gastiglione, M. Bernaschi, A. de Luca, and P. M. A. Sloot. HIV reservoirs and immune surveillance evasion cause the failure of structured treatment interruptions: a computational study. PLoS ONE 7(4), e36108.
  Abstract Citation Links
• Article
  Y. Kim, R. Sinclair, N. Chindapol, J. A. Kaandorp, and E. De Schutter. Geometric theory predicts bifurcations in minimal wiring cost trees in biology are flat. PLoS Computational Biology 8(4), p. e1002474.
  Abstract Citation Links
• Article
  X. Wang, H. C. Schröder, K. Wang, J. A. Kaandorp, and W. E. G. Müller. Genetic, biological and structural hierarchies during sponge spicule formation: From soft sol-gels to solid 3D silica composite structures. Soft Matter 8(37), pp. 9501-9518.
  Abstract Citation Links
• Article
  B. Pengel, G. S. Shirshov, V. V. Krzhizhanovskaya, N. B. Melnikova, A. Koelewijn, A. L. Pyayt, and I. I. Mokhov. Flood Early Warning System: Sensors and Internet. Journal of Flood Risk Management .
  Citation
• MSc Thesis
  K. W. Kongsgård. Expertise Modeling on cQA Sites -- News Feed Optimization. Supervised by E. Meij.
  Citation Links
• MSc Thesis
  P. Firmpas Nisantzis. Evolving collective and single cell motility in a computational model of tumor invasion. Supervised by R. M. H. Merks and J. A. Kaandorp.
  Citation Links
• Article
  S. Koulouzis, R. Cushing, K. A. Karasavvas, A. Belloum, and M. Bubak. Enabling web services to consume and produce large datasets. IEEE Internet Computing 16(1), pp. 52-60.
  Abstract Citation Links
• Article
  H. Ali, Y. Shi, D. Khazanchi, M. Lees, G. D. van Albada, J. Dongarra, and P. M. A. Sloot. Empowering Science through Computing, preface for ICCS 2012. Procedia Computer Science 9, pp. 1-6.
  Citation Links
• Proceedings
  S. Varma, C. Pedronaci, D. Kalra, M. C. Villa Uriol, P. Lamata, E. Schileo, B. Ó Nualláin, N. S. H. Smith, S. Wood, and D. R. Hose. Embodying a Patient Avatar for Computational Workflows. In: VPH Conference 2012, London.
  Citation
• Proceedings
  S. J. Zasada, M. Mamonski, D. Groen, J. Borgdorff, I. Saverchenko, T. Piontek, K. Kurowski, and P. V. Coveney. Distributed infrastructure for multiscale computing. In: 2012 IEEE/ACM 16th International Symposium on Distributed Simulation and Real Time Applications: DS-RET 2012: Proceedings. ISBN 9781467329545. pp. 65-74.
  Abstract Citation Links
• Proceedings
  A. L. Pyayt, I. I. Mokhov, A. P. Kozionov, V. T. Kusherbaeva, B. Lang, V. V. Krzhizhanovskaya, and R. J. Meijer. Data-driven modelling for flood defence structure analysis. In: Comprehensive flood risk management: research for policy and practice. ISBN 9780415621441. pp. 301-306.
  Abstract Citation
• Proceedings
  A. L. Pyayt, I. I. Mokhov, A. Kozionov, and V. Kusherbaeva. Data-driven methods in UrbanFlood project for flood defence structure measurements analysis.
  Citation
• Proceedings
  C. D. Erdbrink, V. V. Krzhizhanovskaya, and P. M. A. Sloot. Controlling flow-induced vibrations of flood barrier gates with data-driven and finite-element modelling. In: Comprehensive flood risk management: research for policy and practice. ISBN 9780415621441. pp. 425-434.
  Abstract Citation
• Proceedings
  V. V. Krzhizhanovskaya, N. B. Melnikova, G. S. Shirshov, F. I. Rusadi, R. G. Belleman, J. Lhomme, B. P. Gouldby, A. Topple, and J. Simm. Computational models in flood early warning systems. In: Comprehensive flood risk management: research for policy and practice. ISBN 9780415621441. p. 1533.
  Citation
• Article
  N. Zarrabi, M. Prosperi, R. G. Belleman, M. Colafigli, A. De Luca, and P. M. A. Sloot. Combining epidemiological and genetic networks signifies the importance of early treatment in HIV-1 transmission. PLoS ONE 7(9), p. e46156.
  Abstract Citation Links
• Chapter
  A. Adamatzky, S. Akl, R. Alonso-Sanz, W. van Dessel, Z. Ibrahim, A. Ilachinski, J. Jones, A. V. D. M. Kayem, G. J. Martínez, P. de Oliveira, M. Prokopenko, T. Schubert, P. Sloot, E. Strano, and X.-S. Yang. Biorationality of motorways. In: Bioevaluation of world transport networks. ISBN 9789814407038. pp. 309-325.
  Citation Links
• Article
  Q. C. Bui and P. M. A. Sloot. A robust approach to extract biomedical events from literature. Bioinformatics 28(20), pp. 2654-2661.
  Abstract Citation Links
• Proceedings
  M. A. Prosnikov and V. V. Krzhizhanovskaya. A review of methods and software packages for simulation of nanosystems. In: Proceedings of the International conference "The 41st Science Week". 6, pp. 128-130.
  Citation Links
• Proceedings
  V. S. Lebanin and V. V. Krzhizhanovskaya. A model of reaction kinetics for two neutral particles in gases and plasmas. In: Proceedings of the International conference "The 41st Science Week". 6, pp. 146-149.
  Citation Links
• Article
  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.
  Abstract Citation Links
• MSc Thesis
  R. Dries. 3D mass-spring model for studying early development of the starlet sea anemone nematostella vectensis. Supervised by C. Tamulonis and J. A. Kaandorp.
  Citation

2011

• Article
  N. B. Melnikova, G. S. Shirshov, and V. V. Krzhizhanovskaya. Virtual Dike: multiscale simulation of dike stability. Procedia Computer Science 4, pp. 791-800.
  Abstract Citation Links
• Proceedings
  V. V. Krzhizhanovskaya, N. B. Melnikova, G. S. Shirshov, and N. N. Shabrov. Virtual Dike and Flood Simulator: Parallel distributed computing for flood early warning systems. In: Proceedings of the International Conference on Parallel Computational Technologies (PAVT-2011). ISBN 9785696040905. pp. 365-373.
  Citation Links
• PhD Thesis
  G. Qiu. Understanding the complex dynamics of financial markets through microsimulation. ISBN 9789491211010. Supervised by P. M. A. Sloot and D. Kandhai.
  Abstract Citation

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