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Müller, Felix Johannes and Haack, Fiete and Köster, Till and Uhrmacher, Adelinde M. (2024) Computational model of cell cell interaction in bone remodelling. In: ELAINE 2024, 20-22 Mar 2024, Rostock, Germany. Poster.
Köster, Till (2024) Efficient Abstraction and Execution of Stochastic Simulation Models. PhD thesis, Institute for Visual and Analytic Computing, University of Rostock.
Köster, Till and Henning, Philipp and Warnke, Tom and Uhrmacher, Adelinde (2024) Expressive rule-based modeling and fast simulation for dynamic compartments. PLOS ONE, 19 (10), e0312813. ISSN 1932-6203.
Köster, Till and Reinhardt, Oliver and Hinsch, Martin and Bijak, Jakub and Uhrmacher, Adelinde M. (2024) A Fast Embedded Language for Continuous-Time Agent-Based Simulation. Journal of Artificial Societies and Social Simulation, 27 (1), p. 10. ISSN 1460-7425.
Köster, Till and Uhrmacher, Adelinde M. (2023) Efficient Execution for Domain Specific Languages: Comparing Two Approaches for Demography and Cellular Biology. In: SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2023), 21-23 Jun 2023, Orlando, Florida, USA. Proceedings, published by Association for Computing Machinery (ACM), New York, NY, USA, pp. 46-47.
Henning, Philipp and Köster, Till and Haack, Fiete and Burrage, Kevin and Uhrmacher, Adelinde M. (2023) Implications of different membrane compartmentalization models in particle-based in silico studies. Royal Society Open Science, 10 (7), e221177. ISSN 2054-5703.
Köster, Till (2023) Reproducibility Report for the Paper: “Workload Interference Prevention with Intelligent Routing and Flexible Job Placement on Dragonfly”. In: SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2023), 21-23 Jun 2023, Orlando, Florida, USA. Proceedings, published by Association for Computing Machinery (ACM), New York, NY, USA, pp. 151-153. Extended-Abstract.
Andelfinger, Philipp and Köster, Till and Uhrmacher, Adelinde M. (2023) Zero Lookahead? Zero Problem. The Window Racer Algorithm. In: SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2023), 21-23 Jun 2023, Orlando, Florida, USA. Proceedings, published by Association for Computing Machinery (ACM), New York, NY, USA, pp. 1-11.
Köster, Till and Warnke, Tom and Uhrmacher, Adelinde M. (2022) Generating Fast Specialized Simulators for Stochastic Reaction Networks via Partial Evaluation. ACM Transactions on Modeling and Computer Simulation (TOMACS), 32 (2), pp. 1-25. ISSN 1049-3301 (print) 1558-1195 (online).
Köster, Till and Herrmann, Leon and Andelfinger, Philipp and Uhrmacher, Adelinde M. (2022) GPU-Accelerated Simulation Ensembles of Stochastic Reaction Networks. In: Winter Simulation Conference (WSC 2022), 11-14 Dec 2022, Singapore. Proceedings, published by IEEE, pp. 2570-2581.
Köster, Till (2022) Reproducibility Report for the Paper: “Spatial/Temporal Locality-based Load-sharing in Speculative Discrete Event Simulation on Multi-core Machines”. In: ACM SIGSIM Conference Principles of Advanced Discrete Simulation (PADS 2022), 08-10 Jun 2022, Atlanta, GA, USA (Virtuell). Proceedings, published by ACM, New York, NY, USA, pp. 134-137.
Köster, Till (2022) Reproducibility Report for the Paper: “Speculative Distributed Simulation of Very Large Spiking Neural Networks”. In: ACM SIGSIM Conference Principles of Advanced Discrete Simulation (PADS 2022), 08-10 Jun 2022, Atlanta, GA, USA (Virtuell). Proceedings, published by ACM, New York, NY, USA, pp. 141-144.
Köster, Till and Uhrmacher, Adelinde M. and Andelfinger, Philipp (2022) Towards an Open Repository for Reproducible Performance Comparison of Parallel and Distributed Discrete-Event Simulators. In: ACM Conference SIGSIM Principles of Advanced Discrete Simulation (PADS 2022), 08-10 Jun 2022, Atlanta, GA, USA (Virtuell). Proceedings, published by ACM, New York, NY, USA, pp. 31-32.
Li, Junjiang and Köster, Till and Giabbanelli, Philippe J. (2021) Design and evaluation of update schemes to optimize asynchronous Cellular Automata with random or cyclic orders. In: The 25th International Symposium on Distributed Simulation and Real Time Applocations (IEEE/ACM DS-RT 2021), 27-29 Sep 2021, Valencia, Spain. Proceedings, published by IEEE Computer Society, Los Alamitos, CA, USA, pp. 1-8.
Haack, Fiete and Köster, Till and Uhrmacher, Adelinde M. (2021) Receptor/raft ratio is a determinant for LRP6 phosphorylation and WNT/β-catenin signaling. Frontiers in Cell and Developmental Biology, 9, p. 2085. ISSN 2296-634X.
Kreikemeyer, Justin N. and Köster, Till and Uhrmacher, Adelinde M. and Warnke, Tom (2021) Inferring Dependency Graphs for Agent-based Models Using Aspect-oriented Programming. In: Winter Simulation Conference (WSC 2021), 13-16 Dec 2021, Phoenix, Arizona, USA. Proceedings, published by IEEE Press, pp. 1-12.
Giabbanelli, Philippe J. and Köster, Till and Devita, Joshua A. and Kohrt, Jared A. (2020) Optimizing Discrete Simulations of the Spread of HIV-1 to Handle Billions of Cells on aWorkstation. In: ACM SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2020), 15-17 Jun 2020, Miami, Florida, USA. Proceedings, published by ACM, New York, USA, pp. 67-78.
Köster, Till and Warnke, Tom and Uhrmacher, Adelinde M. (2020) Partial evaluation via code generation for static stochastic reaction network models. In: ACM SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2020), 15-17 Jun 2020, Miami, Florida, USA. Proceedings, published by ACM, New York, USA, pp. 159-170.
Köster, Till and Giabbanelli, Philippe J. and Uhrmacher, Adelinde M. (2020) Performance and Soundness of Simulation: A Case Study based on a Cellular Automaton for In-Body Spread of HIV. In: Winter Simulation Conference (WSC 2020), 13-16 Dec 2020, Orlando, Florida, USA. Proceedings, published by IEEE Computer Society, pp. 2281-2292.
Köster, Till and Henning, Philipp and Uhrmacher, Adelinde M. (2019) Potential based, spatial simulation of dynamically nested particles. BMC Bioinformatics, 20 (607), ISSN 1471-2105.
Köster, Till (2019) Efficient Simulation of Cell-Biological Multi-Level Models. In: ACM SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2019), 03-05 Jun 2019, Chicago, IL, USA. Poster.
Köster, Till and Drüeke, Nicola M. and Uhrmacher, Adelinde M. (2018) Latency Optimized Execution of Sequential Simulators by Parallel Parameter Optimization. In: Winter Simulation Conference (WSC 2018), 09-12 Dec 2018, Gothenburg, Sweden. Poster.
Köster, Till and Hauptmann, Felix and Uhrmacher, Adelinde M. (2018) Optimizing Data Structures for Highly Dynamic Content in Collective, Adaptive Systems. In: Winter Simulation Conference (WSC 2018), 09-12 Dec 2018, Gothenburg, Sweden. Poster.
Henning, Philipp and Köster, Till and Uhrmacher, Adelinde M. (2018) Challenges in reproducing an ODE vesicle transport model with particles in continuous space. In: Multiscale modeling and simulations to bridge molecular and cellular scales, 1-5 Oct 2018, Pisa, Italy. Poster.
Köster, Till and Uhrmacher, Adelinde M. (2018) Handling Dynamic Sets of Reactions in Stochastic Simulation Algorithms. In: ACM SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2018), 23-25 May 2018, Rome, Italy. Proceedings, published by ACM, New York, NY, USA, pp. 161-164.
Köster, Till and Uhrmacher, Adelinde M. (2017) Multi-Level Particle-Based Modeling and Simulation of Cell Biological Systems. In: V International Conference on Particle-Based Methods, 26-28 Sep 2017, Hannover, Germany. Invited Talk.
Köster, Till (2017) Combined particle and compartmental dynamics of cell-biological models using hollow spheres on the GPU. Masters thesis, Institut of Computer Science, University of Rostock.
Köster, Till and Perumalla, Kalyan and Uhrmacher, Adelinde M. (2017) Efficient Simulation of Nested Hollow Sphere Intersections for Dynamically Nested Compartmental Models in Cell Biology. In: ACM SIGSIM Conference on Principles of Advanced Discrete Simulation (PADS 2017), 24-26 May 2017, Singapore. Proceedings, published by ACM New York, NY, USA, pp. 173-183.
Henning, Philipp and Köster, Till and Uhrmacher, Adelinde M. (2017) Idiosyncracies in Multi-Spatial Modeling. In: 15th Conference on Computational Methods in Systems Biology (CMSB 2017), 27-29 Sep 2017, Darmstadt, Germany. Poster.
