2016
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ChapterAnatomy and Physiology of Multiscale Modeling and Simulation in Systems Medicine. In: Systems Medicine. ISBN 9781493932832. pp. 375-404..
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ArticleAbnormally high oscillator strengths of the graphene nanoribbons electronic spectrum. RSC Advances 6(79), pp. 75937-75942..
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ArticleA novel three-jet microreactor for localized metal-organic chemical vapour deposition of gallium arsenide. Journal of Physics: Conference Series 741, 012018..
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Article3D simulation and analytical model of chemical heating during silicon wet etching in microchannels. Journal of Physics: Conference Series 681, 012035..
2015
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ArticleYoung Researchers Advancing Computational Science: Perspectives of the Young Scientists Conference 2015. Procedia Computer Science 66, pp. 1-4..
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PhD ThesisTransport of blood cells studied with fully resolved models. ISBN 9789462597754. Supervised by P. M. A. Sloot and A. G. Hoekstra..
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ArticleTopological Characterization of Complex Systems: Using Persistent Entropy. Entropy 17(10), pp. 6872-6892..
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ArticleSimulating city-level airborne infectious diseases. Computers, Environment and Urban Systems 51, pp. 97-105..
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ArticleScaling description of positive magnetoresistivity in doped dilute magnetic semiconductors. Journal of Magnetism and Magnetic Materials 383(1), pp. 44-49..
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ArticleSIM-CITY: An e-Science Framework for Urban Assisted Decision Support. Procedia Computer Science 51, pp. 2327-2336..
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ArticleRussian-Dutch double-degree Master’s programme in computational science in the age of global education. Journal of Computational Science 10, pp. 288-298..
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ArticlePerspectives of the International Conference of Computational Science 2014. Journal of Computational Science 10, pp. 247-248..
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ArticleParallel performance of an IB-LBM suspension simulation framework. Journal of Computational Science 9, pp. 45-50..
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ArticleOn the Possible Interaction Mechanism between Collateral Vessels and Restenosis. Procedia Computer Science 66, pp. 412-418..
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ArticleNumerical prediction of the IJkDijk trial embankment failure. Proceedings of the Institution of Civil Engineers. Geotechnical Engineering 168(2), pp. 158-171..
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ArticleMultiscale Modelling and Simulation Workshop: 12 Years of Inspiration. Procedia Computer Science 51, pp. 1082-1087..
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ArticleModeling chemical vapor deposition of silicon dioxide in microreactors at atmospheric pressure. Journal of Physics: Conference Series 574, 012145..
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BookInternational Conference On Computational Science, ICCS 2015: Computational Science at the Gates of Nature..
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ArticleInformation impact on transportation systems. Journal of Computational Science 9, pp. 88-93..
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ArticleHow to Speed up Optimization? Opposite-Center Learning and Its Application to Differential Evolution. Procedia Computer Science 51, pp. 805-814..
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ArticleFrom Data to Disruption. Digital Investigation 11, pp. 39-45..
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ArticleFluid Simulations with Atomistic Resolution: Multiscale Model with Account of Nonlocal Momentum Transfer. Procedia Computer Science 51, pp. 1108-1117..
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ArticleExperience of using FEM for real-time flood early warning systems: Monitoring and modeling Boston levee instability. Journal of Computational Science 10, pp. 13-25..
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ArticleEvolving agent-based models using self-adaptive complexification. Journal of Computational Science 10, pp. 351-359..
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ArticleDifferential evolution for system identification of self-excited vibrations. Journal of Computational Science 10, pp. 360-369..
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ProceedingsDetecting erosion events in earth dam and levee passive seismic data with clustering. In: 2015 IEEE 14th International Conference on Machine Learning and Applications. ISBN 9781509002870. pp. 903-910..
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ArticleDensity-based evolutionary framework for crowd model calibration. Journal of Computational Science 6, pp. 11-22..
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ArticleData-driven modeling of transportation systems and traffic data analysis during a major power outage in the Netherlands. Procedia Computer Science 66, pp. 336-345..
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ArticleConvergence of the discrete dipole approximation. I. Theoretical analysis: erratum. Journal of the Optical Society of America. A, Optics, Image Science and Vision 32(12), pp. 2407-2408..
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ArticleComputational Science at the Gates of Nature, preface for ICCS 2015. Procedia Computer Science 51, pp. 1-8..
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ArticleComplex agent networks: An emerging approach for modeling complex systems. Applied Soft Computing 37, pp. 311-321..
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ArticleCombining data-driven methods with finite element analysis for flood early warning systems. Procedia Computer Science 51, pp. 2347-2356..
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ArticleAn 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..
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ProceedingsAn Asynchronous Synchronization Strategy for Parallel Large-scale Agent-based Traffic Simulations. In: SIGSIM-PADS'15. ISBN 9781450335836, 9781450335652. pp. 259-269..
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ArticleA review of interactive narrative systems and technologies. Simulation 91(2), pp. 126-147..
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ArticleA partition-based match making algorithm for dynamic ridesharing. IEEE Transactions on Intelligent Transportation Systems 16(5), pp. 2587-2598..
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ArticleA mathematical model and simulation results of plasma enhanced chemical vapor deposition of silicon nitride films. Journal of Physics: Conference Series 574, 012144..
2014
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ProceedingsКомпьютерное моделирование и экспериментальные исследования закономерностей плазмохимического осаждения тонких пленок нитрида кремния. In: Неделя науки СПбГПУ : материалы Научно-практической конференции с международным участием, 2-7 декабря 2013 года. ISBN 9785742243472, 9785742243243. 2, pp. 31-33..
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ArticleValidation of an efficient two-dimensional model for dense suspensions of red blood cells. International Journal of Modern Physics C 25(12), 1441005..
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ArticleUnderstanding the Sub-Cellular Dynamics of Silicon Transportation and Synthesis in Diatoms Using Population-Level Data and Computational Optimization. PLoS Computational Biology 10(6), e1003687..
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ArticleTowards a data-driven approach to scenario generation for serious games. Computer Animation and Virtual Worlds 25(3-4), pp. 393-402..
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ProceedingsToward Simulation-Based Egress Optimization in Smart Buildings Using Symbiotic Simulation. In: Pedestrian and Evacuation Dynamics 2012. ISBN 9783319024462. pp. 987-999..
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ArticleTopology dependent epidemic spreading velocity in weighted networks. Journal of Statistical Mechanics : Theory and Experiment 2014(12), P12020..
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ArticleTime-frequency Methods for Structural Health Monitoring. Sensors 14(3), pp. 5147-5173..
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MSc ThesisThe use of genetic algorithms to find an optimum MHD as an approximate description of holes. Supervised by S. Markoff and A. Boukhanovsky..
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ArticleThe skeleton of the staghorn coral Acropora millepora: molecular and structural characterization. PLoS ONE 9(6), e97454..
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ArticleThe emergence of slums: A contemporary view on simulation models. Environmental Modelling & Software 59, pp. 76-90..
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ArticleThe Relative Ineffectiveness of Criminal Network Disruption. Scientific Reports 4, 4238..
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ArticleSuper Fast Greeks: An Application to Counterparty Valuation Adjustments. Wilmott 69, pp. 76-80..
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MSc ThesisStudy of the news spread among social network user with respect to their stakeholdership. Supervised by R. Quax and A. Yakushev..
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ReportSlope Instability of the Earthen Levee in Boston, UK: Numerical Simulation and Sensor Data Analysis..
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ProceedingsSimulation of City Evacuation Coupled to Flood Dynamics. In: Pedestrian and Evacuation Dynamics 2012. ISBN 9783319024462. pp. 485-499..
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ArticleSignal analysis and anomaly detection for flood early warning systems. Journal of Hydroinformatics 16(5), pp. 1025-1043..
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ArticleShort-Term Forecasting of Taiwanese Earthquakes Using a Universal Model of Fusion-Fission Processes. Scientific Reports 4, 3624..
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ArticleReducing cross-flow vibrations of underflow gates: experiments and numerical studies. Journal of Fluids and Structures 50, pp. 25-48..
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ArticleQuantitative Comparison Between Crowd Models for Evacuation Planning and Evaluation. The European Physical Journal B. Condensed Matter Physics 87(2), 27..
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ProceedingsProceedings of the International Conference on Computational Science, ICCS 2014. Procedia Computer Science 29..
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ArticlePerformance of distributed multiscale simulations. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 20130407..
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ArticleMultiscale modelling: approaches and challenges. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 20130390..
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ArticleMultiscale modelling and simulation: a position paper. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 20130377..
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ArticleMulti-scale systems in fluids and soft matter: approaches, numerics and applications. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021)..
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MSc ThesisMulti-objective optimization approach to infer Drosophila gene regulatory parameters. Supervised by A. S. Z. Belloum and S. Kovalchuk..
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ChapterMulti-Scale Modelling and Simulation. In: Computational biomedicine: modelling the human body. ISBN 9780199658183. pp. 138-160..
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PhD ThesisModelling flow-induced vibrations of gates in hydraulic structures. ISBN 9789064648007. Supervised by P. M. A. Sloot and V. V. Krzhizhanovskaya..
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ArticleInference of the Russian drug community from one of the largest social networks in the Russian Federation. Quality and Quantity 48(5), pp. 2739-2755..
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ArticleIndividual decision making can drive epidemics: a fuzzy cognitive map study. IEEE Transactions on Fuzzy Systems 22(2), pp. 264-273..
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ArticleIdentifying Self-excited Vibrations with Evolutionary Computing. Procedia Computer Science 29, pp. 637-647..
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ArticleFrom histology and imaging data to models for in-stent restenosis. The international journal of artificial organs 37(10), pp. 786-800..
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ArticleFree-surface flow simulations for discharge-based operation of hydraulic structure gates. Journal of Hydroinformatics 16(1), pp. 189-206..
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PhD ThesisFinite element analysis of levee stability for flood early warning systems. ISBN 9789064648069. Supervised by P. M. A. Sloot and V. V. Krzhizhanovskaya..
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ArticleExperimental Collapse of the IJkDijk: Numerical Prediction of Failure Mode and Posterior Sensor Data Analysis. Canadian Geotechnical Journal ..
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ArticleEvolving Agent-based Models Using Complexification Approach. Procedia Computer Science 29, pp. 310-321..
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ArticleEnergy position of the transport path in disordered organic semiconductors. Journal of Physics-Condensed Matter 26(25), 255801..
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ArticleEndothelial 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..
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ProceedingsEfficient graph-based dynamic load-balancing for parallel large-scale agent-based traffic simulation. In: Proceedings of the 2014 Winter Simulation Conference: exploring big data through simulation: December 7-10, 2014, Westin Savannah Harbor Resort, Savannah, GA. ISBN 9781479974849. pp. 3483-3494..
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ArticleEfficient Computation of Exposure Profiles for Counterparty Credit Risk. International Journal of Theoretical and Applied Finance 17(4), 1450024..
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ProceedingsEA-based evacuation planning using agent-based crowd simulation. In: Proceedings of the 2014 Winter Simulation Conference: exploring big data through simulation: December 7-10, 2014, Westin Savannah Harbor Resort, Savannah, GA. ISBN 9781479974849. pp. 395-406..
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ProceedingsDutch-Russian Double Degree Master's Program Curricula in Computational Science and High Performance Computing. In: 2014 IEEE Frontiers in Education Conference. ISBN 9781479939213, 9781479939220..
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ArticleDouble-degree Master's Program in Computational Science: Experiences of ITMO University and University of Amsterdam. Procedia Computer Science 29, pp. 1433-1445..
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ArticleDistributed multiscale computing with MUSCLE 2, the Multiscale Coupling Library and Environment. Journal of Computational Science 5(5), pp. 719-731..
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PhD ThesisDistributed multiscale computing. ISBN 9789462592353. Supervised by P. M. A. Sloot and A. G. Hoekstra..
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PhD ThesisData-driven methods in application to flood defence systems monitoring and analysis. ISBN 9789064648052. Supervised by P. M. A. Sloot and V. V. Krzhizhanovskaya..
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ArticleBig Data Meets Computational Science: preface for ICCS 2014. Procedia Computer Science 29, pp. 1-7..
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ProceedingsAutomatic Rule Identification for Agent-Based Crowd Models Through Gene Expression Programming. In: AAMAS '14: proceedings of the 2014 International Conference on Autonomous Agents & Multiagent Systems. ISBN 9781450327381. pp. 1125-1132..
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ArticleApplying Information Theory to Neuronal Networks: From Theory to Experiments. Entropy 16(11), pp. 5721-5737..
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ArticleAnalysing the Effectiveness of Wearable Wireless Sensors in Controlling Crowd Disasters. Procedia Computer Science 29, pp. 1590-1599..
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PhD ThesisAgent based modeling of viral infections: an investigation across several spatio-temporal scales. Supervised by P. M. A. Sloot..
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ArticleA novel feature-based approach to extract drug-drug interactions from biomedical text. Bioinformatics 30(23), pp. 3365-3371..
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ArticleA model of filamentous cyanobacteria leading to reticulate pattern formation. Life (Basel) 4(3), pp. 433-456..
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ArticleA framework for multi-scale modelling. Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences 372(2021), 2013037813..
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ArticleA computational approach towards a gene regulatory network for the developing Nematostella vectensis gut. PLoS ONE 9(7), e103341..
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Book2014 International Conference on Computational Science..
2013
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ArticleИнтеллектуальная система мониторинга состояния объектов критической инфраструктуры. Integral 2013(4), pp. 84-86..
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ArticleWhere do the platelets go? A simulation study of fully resolved blood flow through aneurysmal vessels. Interface Focus 3(2), p. 20120089..
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ProceedingsUnderstanding Emergence in a Fully-Specified Nested Logit Model..
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ArticleTowards understanding the behavior of physical systems using information theory. The European Physical Journal - Special Topics 222(6), pp. 1389-1401..
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ProceedingsTopic Crawler for Social Networks Monitoring. In: Knowledge Engineering and the Semantic Web. ISBN 9783642413605. pp. 214-227..
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PhD ThesisThe symphony of gene regulation. Supervised by P. M. A. Sloot and J. A. Kaandorp..
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ArticleThe skeletal proteome of the coral Acropora millepora: the evolution of calcification by co-option and domain shuffling. Molecular Biology and evolution 30(9), pp. 2099-2112..
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ArticleThe shell-forming proteome of Lottia gigantea reveals both deep conservations and lineage-specific novelties. The FEBS Journal 280(1), pp. 214-232..