Publications

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Helms T, Rybacki S, Ewald R, Uhrmacher A.  2012.  An adaptive simulator for ML-rules. :Poster@WinterSimulationConference(WSC'12).
Ewald R, Himmelspach J, Uhrmacher A.  2008.  An Algorithm Selection Approach for Simulation Systems. Proc. ACM/IEEE/SCS Workshop on Principles of Advanced and Distributed Simulation PADS'08.
Helms T, Luboschik M, Schumann H, Uhrmacher A.  2013.  An Approximate Execution of Rule-Based Multi-level Models. Computational Methods in Systems Biology. 8130:19--32.
Helms T, Ewald R, Rybacki S, Uhrmacher AM.  2015.  Automatic Runtime Adaptation for Component-Based Simulation Algorithms. ACM Trans. Model. Comput. Simul.. 26(1):7:1–7:24.
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John M, Schulz H-J, Schumann H, Uhrmacher A, Unger A.  2012.  Constructing and Visualizing Chemical Reaction Networks from Pi-Calculus Models. to appear in Formal Aspects of Computing.
John M, Schulz H-J, Schumann H, Uhrmacher A, Unger A.  2013.  Constructing and Visualizing Chemical Reaction Networks from Pi-Calculus Models. Formal Aspects of Computing. 25(5):723--742.
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Rybacki S, Haack F, Wolf K, Uhrmacher A.  2014.  Developing simulation models - from conceptual to executable model and back - an artifact-based workflow approach. Simutools.
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Kossow C, Rybacki S, Millat T, Rateitschak K, Jaster R, Uhrmacher A, Wolkenhauer O.  2015.  An explicit numerical scheme to efficiently simulate molecular diffusion in environments with dynamically changing barriers. Mathematical and Computer Modelling of Dynamical Systems. 21(6)
Jeschke M, Ewald R, Uhrmacher A.  2011.  Exploring the Performance of Spatial Stochastic Simulation Algorithms. Journal of Computational Physics.
F
Ewald R, Himmelspach J, Jeschke M, Leye S, Uhrmacher A.  2010.  Flexible Experimentation in the Modeling and Simulation Framework JAMES II - Implications for Computational Systems Biology. Briefings in Bioinformatics. 11:290-300.
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Helms T, Ewald R, Rybacki S, Uhrmacher A.  2013.  A Generic Adaptive Simulation Algorithm for Component-based Simulation Systems. Proceedings of the 2013 ACM SIGSIM conference on Principles of advanced discrete simulation.
Helms T, Ewald R, Rybacki S, Uhrmacher A.  2014.  A Generic Adaptive Simulation Algorithm for Component-based Simulation Systems. ACM Transactions on Modeling and Computer Simulation. 1(2)
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Luboschik M, Maus C, Schulz H-J, Schumann H, Uhrmacher A.  2012.  Heterogeneity-based guidance for exploring multiscale data in Systems Biology. Proceedings of the IEEE Symposium on Biological Data Visualization (BioVis'12).
Luboschik M, Maus C, Schulz H-J, Schumann H, Uhrmacher A.  2012.  Heterogeneity-based Guidance for Exploring Multiscale Data in Systems Biology.
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Luboschik M, Rybacki S, Ewald R, Schwarze B, Schumann H, Uhrmacher A.  2012.  Interactive Visual Exploration of Simulator Accuracy: A Case Study for Stochastic Simulation Algorithms. Proceedings of the Winter Simulation Conference (WSC'2012).
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Bittig AT, Matschegewski C, Nebe BJ, Stählke S, Uhrmacher AM.  2014.  Membrane related dynamics and the formation of actin in cells growing on micro-topographies: A spatial computational model. BMC Systems Biology. 8:1–19.
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Schützel J, Meyer H, Uhrmacher A.  2014.  A Stream-Based Architecture for the Management and On-Line Analysis of Unbounded Amounts of Simulation Data. SIGSIM-PADS '14.
Schützel J, Himmelspach J, Meyer H, Heuer A, Uhrmacher A.  2012.  Streaming data management for the online processing of simulation data. :Poster@WinterSimulationConference(WSC'12).
Haack F, Burrage K, Redmer R, Uhrmacher A.  2013.  Studying the Role of Lipid Rafts on Protein Receptor Bindings with Cellular Automata. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS. 10(3)
Haack F, Burrage K, Redmer R, Uhrmacher A.  2012.  Studying the role of lipid rafts on protein-receptor bindings with Cellular Automata. To Appear in IEEE/ACM Trans. Comput. Biol. Bioinformatics.
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Rybacki S, Leye S, Himmelspach J, Uhrmacher A.  2012.  Template and Frame based Experiment Workflows in Modeling and Simulation Software with WORMS. Seventh IEEE 2012 World Congress on Services - Sixth International Workshop on Scientific and Engineering Workflows: Advances in Data and Event-Driven Workflows.
Helms T, Himmelspach J, Maus C, Röwer O, Schützel J, Uhrmacher A.  2012.  Toward a language for the flexible observation of simulations. Proc. of the Winter Simulation Conference (WSC'12).
Aehnelt M, Schulz H-J, Urban B.  2013.  Towards a Contextualized Visual Analysis of Heterogeneous Manufacturing Data. Proceedings of the International Symposium on Visual Computing (ISVC'2013).
Luboschik M, Tominski C, Bittig AT, Uhrmacher A, Schumann H.  2012.  Towards Interactive Visual Analysis of Microscopic-Level Simulation Data. Proceedings of the Annual SIGRAD Conference, Special Theme: Interactive Visual Analysis of Data.
U
Rybacki S, Himmelspach J, Uhrmacher A.  2012.  Using workflows to control the experiment execution in M&S Software. Proceedings of the 5th SimuTools conference.