Publications of the CSL group2025
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Article. Omgaan met onzekerheden ten tijde van een pandemie. Nederlands Tijdschrift voor Geneeskunde 169(2), D8287.
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Chapter. Natural Information Processing. In: Foundational Papers in Complexity Science. 4, p. 2447.
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Article. Modelling diversity in hospital strategies in city-scale ambulance dispatching with coupled game-theoretic model and discrete-event simulation. Journal of Biomedical Informatics 162, 104777.
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Article. Income inequality in the uptake of environmentally friendly products. iScience 28(4), 112277.
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PhD Thesis. How to intervene?. Supervised by P. M. A. Sloot, M. H. Lees, and V. V. Vasconcelos.
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Article. Debate: Urban versus rural environments – which is better for mental health? The one good thing about a small town…. Child and Adolescent Mental Health .
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PhD Thesis. Computational modelling of school choice and school segregation. ISBN 9789464737264. Supervised by P. M. A. Sloot, A. Flache, M. H. Lees, and W. R. Boterman.
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Article. Carbon pricing drives critical transition to green growth. Nature Communications 16(1), p. 1321.
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Article. Advancing In Silico Clinical Trials for Regulatory Adoption and Innovation. IEEE Journal of Biomedical and Health Informatics 29(4), pp. 2654-2668.
2024
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Proceedings. Understanding the Impact of Entity Linking on the Topology of Entity Co-occurrence Networks for Social Media Analysis. In: Knowledge Engineering and Knowledge Management. ISBN 9783031777929. p. 69–85.
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Article. Uncertainty quantification of the impact of peripheral arterial disease on abdominal aortic aneurysms in blood flow simulations. Journal of the Royal Society Interface 21(213).
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Proceedings. Trends in Computational Science. In: Computational Science – ICCS 2024 - 24th International Conference, Proceedings. ISBN 9783031637537. pp. 19-33.
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Article. Trajectory-based global sensitivity analysis in multiscale models. Scientific Reports 14, 13902.
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Proceedings. Towards a Generation of Digital Twins in Healthcare of Ischaemic and Haemorrhagic Stroke. In: Computational Science – ICCS 2024. ISBN 9783031637599. III, pp. 239-245.
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Article. Three Myths in Complexity Science and How to Resolve Them.
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Article. The need for systems thinking to advance Alzheimer's disease research. Psychiatry Research 333, 115741.
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Article. The impact of cardiovascular diagnostics and treatments on fall risk in older adults. GeroScience 46, pp. 153-169.
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Article. The effect of flow-derived mechanical cues on the growth and morphology of platelet aggregates under low, medium, and high shear rates. Computers in Biology and Medicine 180, 109010.
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Article. Stationary covariance regime for affine stochastic covariance models in Hilbert spaces. Finance and Stochastics 28(4), p. 1077–1116.
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Article. Species interactions drive continuous assembly of freshwater communities in stochastic environments. Scientific Reports 14, 21747.
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Article. Sharkovskii's theorem and the limits of digital computers for the simulation of chaotic dynamical systems. Journal of Computational Science 83, 102449.
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Article. Refining the causal loop diagram: A tutorial for maximizing the contribution of domain expertise in computational system dynamics modeling. Psychological Methods 29(1), pp. 169-201.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Article. Predicting early-stage coronary artery disease using machine learning and routine clinical biomarkers improved by augmented virtual data. European Heart Journal - Digital Health 5(5), pp. 542-550.
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PhD Thesis. Platelet aggregation in complex vessel geometries. ISBN 9789464698121. Supervised by A. G. Hoekstra and G. Závodszky.
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Proceedings. Plasma-Assisted Air Cleaning Decreases COVID-19 Infections in a Primary School. In: Computational Science – ICCS 2024 - 24th International Conference, Proceedings. ISBN 9783031637711. pp. 196-209.
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Article. Physics informed data-driven near-wall modelling for lattice Boltzmann simulation of high Reynolds number turbulent flows. Communications Physics 7(1).
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PhD Thesis. Modern advances in computational credit risk modelling. ISBN 9789464736298. Supervised by B. D. Kandhai and P. M. A. Sloot.
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Article. Inferring Dealer Networks in the Foreign Exchange Market Using Conditional Transfer Entropy. Entropy 26(9), 738.
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Article. How social rewiring preferences bridge polarized communities. Chaos, Solitons and Fractals 180, 114594.
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Proceedings. Higher Order Reasoning under Intent Uncertainty Reinforces the Hobbesian Trap. In: AAMAS '24. ISBN 9798400704864. p. 1066–1074.
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Article. Global ranking of the sensitivity of interaction potential contributions within classical molecular dynamics force fields. npj Comput Mater 10(1).
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Chapter. Fractals and Chaos in the Hemodynamics of Intracranial Aneurysms. In: The Fractal Geometry of the Brain. ISBN 9783031476068. p. 397–412.
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Article. FAIR compliant database development for human microbiome data samples. Frontiers in Cellular and Infection Microbiology 14, 1384809.
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Article. Efficient Search Algorithms for Identifying Synergistic Associations in High-Dimensional Datasets. Entropy 26(11), 968.
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Article. Dynamics in and dynamics of networks using DyNSimF. Journal of Computational Science 81, 102376.
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Article. Digital twins of the Earth with and for humans. Communications earth & environment 5, 463.
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Article. Data-driven reduced-order modelling for blood flow simulations with geometry-informed snapshots. Journal of computational Physics 497, 112639.
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Article. Data-driven Lie point symmetry detection for continuous dynamical systems. Machine Learning: Science and Technology 5(1), 015037.
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Article. Criminal organizations exhibit hysteresis, resilience, and robustness by balancing security and efficiency. Scientific Reports 14, 17678.
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Proceedings. CrimeSeen: An Interactive Visualization Environment for Scenario Testing on Criminal Cocaine Networks. In: Computational Science – ICCS 2024. ISBN 9783031637582. III, pp. 195-204.
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Article. Cooperative food bank: a collective insurance regime to govern food insecurity and nitrogen pollution under risk. Environmental Research Letters 19(8), 084057.
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Article. Computation at the Cutting Edge of Science. Journal of Computational Science 81, 102379.
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Article. Comparison of Flow Reduction Efficacy of Nominal and Oversized Flow Diverters Using a Novel Measurement-assisted in Silico Method. Clinical Neuroradiology 34(3), p. 675–684.
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Article. Characterizing pedestrian contact interaction trajectories to understand spreading risk in human crowds. Journal of Computational Science 81, 102358.
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Chapter. Cellular Blood Flow Modeling with HemoCell. In: High Performance Computing for Drug Discovery and Biomedicine . ISBN 9781071634493. pp. 351-368.
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Article. Cascades Towards Noise-Induced Transitions on Networks Revealed Using Information Flows. Entropy 26(12), 1050.
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Article. Carotid single- and dual-layer stents reduce the wall adhesion of platelets by influencing flow and cellular transport. Computers in Biology and Medicine 183, 109313.
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Article. Bias in O-Information Estimation. Entropy 26(10), 837.
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Article. Artificial Intelligence Must Be Made More Scientific. Journal of Chemical Information and Modeling 64(15), pp. 5739-5741.
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Proceedings. Article Classification with Graph Neural Networks and Multigraphs. In: 2024 Joint International Conference on Computational Linguistics, Language Resources and Evaluation, LREC-COLING 2024 - Main Conference Proceedings. ISBN 9782493814104. pp. 1539-1547.
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Proceedings. Application of Generative Artificial Intelligence for Epidemic Modeling. In: 2024 Winter Simulation Conference (WSC). p. 2727–2738.
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Article. Anti-conformists catalyze societal transitions and facilitate the expression of evolving preferences. PNAS nexus 3(8), pgae302.
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Article. An in silico modeling approach to understanding the dynamics of the post-burn immune response. Frontiers in Immunology 15, 1303776.
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Article. Alcohol consumption as a socially contagious phenomenon in the Framingham Heart Study social network. Scientific Reports 14, 4499.
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Article. Adaptive foraging of pollinators fosters gradual tipping under resource competition and rapid environmental change. PLoS Computational Biology 20, e1011762.
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Article. A static replication approach for callable interest rate derivatives: mathematical foundations and efficient estimation of SIMM–MVA. Quantitative Finance 24(3-4), pp. 409-432.
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Article. A data-driven agent-based model of primary school segregation in Amsterdam. Journal of Mathematical Sociology 48(3), pp. 362-392.
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Proceedings. A Three-Dimensional Fluid-Structure Interaction Model for Platelet Aggregates Based on Porosity-Dependent Neo-Hookean Material. In: Computational Science – ICCS 2024. ISBN 9783031637834. VII, pp. 48-62.
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Proceedings. 3D-LEX v1.0 3D Lexicons for American Sign Language and Sign Language of the Netherlands. In: 11th Workshop on the Representation and Processing of Sign Languages. ISBN 9782493814302. pp. 290-301.
2023
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Article. Using picoliter droplet deposition to track clonal competition in adherent and organoid cancer cell cultures. Scientific Reports 13, 18832.
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Article. Using network analysis to identify leverage points based on causal loop diagrams leads to false inference. Scientific Reports 13(1), 21046.
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Article. Unitary partitioning and the contextual subspace variational quantum eigensolver. Physical Review Research 5(1), 013095.
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Proceedings. Understanding the Dynamics of the Proliferative Phase in Local Burn Wound Healing. In: Proceedings - 2023 2023 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2023. ISBN 9798350337488. pp. 3676-3683.
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Article. Understanding multimorbidity requires sign-disease networks and higher-order interactions, a perspective. Frontiers in Systems Biology 3, 1155599.
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Proceedings. Toxicity in Evolving Twitter Topics. In: Computational Science – ICCS 2023. ISBN 9783031360268. IV, pp. 40-54.
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Article. Towards evolutionary predictions: Current promises and challenges. Evolutionary Applications 16(1), pp. 3-21.
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Article. The relationship between cognitive functioning and psychopathology in patients with psychiatric disorders. Psychological Medicine 53(2), pp. 476-485.
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Article. The evolution of forecasting for decision-making in dynamic environments. Collective Intelligence 2(4).
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Article. The dynamics of corruption under an optional external supervision service. Applied Mathematics and Computation 457, 128172.
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Article. The computational planet. Journal of Computational Science 72, 102102.
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Article. Testing hypotheses on the calcification in scleractinian corals using a spatio-temporal model that shows a high degree of robustness. Journal of Theoretical Biology 561(21), 111382.
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Article. TIES 2.0: A dual-topology open source relative binding free energy builder with web portal. Journal of Chemical Information and Modeling 63(3), pp. 718-724.
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Article. Structure and dynamics of an archetypal DNA nanoarchitecture revealed via cryo-EM and molecular dynamics simulations. Nature Communications 14, 3630.
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Article. Simulating the multicausality of Alzheimer's disease with system dynamics. Alzheimer's & Dementia 19(6), pp. 2633-2654.
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Proceedings. Simulating Initial Steps of Platelet Aggregate Formation in a Cellular Blood Flow Environment. In: Computational Science – ICCS 2023. ISBN 9783031360244. III, pp. 323-336.
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Article. Reduced Plasticity in Coupling Strength in the Aging SCN Clock as Revealed by Kuramoto Modeling. Journal of biological rhythms 38(5), pp. 461-475.
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Article. Promises and pitfalls of computational modelling for insurgency conflicts. The Journal of Defense Modeling and Simulation: Applications, Methodology, Technology 20(3), pp. 333-350.
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Proceedings. Professional and 21st Century Skills for Data Driven Digital Economy. In: 2023 IEEE Global Engineering Education Conference (EDUCON). ISBN 9798350399431. pp. 847-854.
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Proceedings. Preface. In: Computational Science – ICCS 2023. ISBN 9783031359958. I, pp. v-vi.
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Proceedings. Preface. In: Computational Science – ICCS 2023. ISBN 9783031360213. II, pp. v-vi.
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Proceedings. Preface. In: 24th International Conference on Computational Science, ICCS 2024. pp. v-vi.
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Article. Preface. Lecture Notes in Computer Science 14076 LNCS, pp. v-vi.
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Article. Preface. Lecture Notes in Computer Science 14075 LNCS, pp. V-Vi.
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Article. Periodic orbits in chaotic systems simulated at low precision. Scientific Reports 13, 11410.
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Article. Optimization of institutional incentives for cooperation in structured populations. Journal of the Royal Society Interface 20(199), 20220653.
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Article. Multi-unit building address geocoding: An approach without indoor location reference data. Transactions in GIS 27(1), pp. 57-83.
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Proceedings. Modelling the Interplay Between Chronic Stress and Type 2 Diabetes On-Set. In: Computational Science – ICCS 2023. ISBN 9783031360206. II, pp. 330-338.
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Article. Measure cross-sectoral structural similarities from financial networks. Scientific Reports 13, 7124.
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Proceedings. Manifold Analysis for High-Dimensional Socio-Environmental Surveys. In: Computational Science – ICCS 2023. ISBN 9783031360275. IV, pp. 25-39.
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Article. Long Time Scale Ensemble Methods in Molecular Dynamics: Ligand-Protein Interactions and Allostery in SARS-CoV-2 Targets. Journal of Chemical Theory and Computation 19(11), pp. 3359-3378.
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Article. Learning Lie Group Symmetry Transformations with Neural Networks. Proceedings of Machine Learning Research 221, pp. 50-59.
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Article. Large-scale molecular dynamics elucidates the mechanics of reinforcement in graphene-based composites. Advanced materials 35(35), e2302237.
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Article. Inverse uncertainty quantification of a mechanical model of arterial tissue with surrogate modelling. Reliability Engineering & System Safety 238, 109393.