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Number of items: 10.

de Heras Ciechomski, P. ; Klann, M. ; Mange, R. ; Koeppl, H. (2013):
From biochemical reaction networks to 3D dynamics in the cell: The ZigCell3D modeling, simulation and visualisation framework.
pp. 41-48, IEEE, 2013 IEEE Symposium on Biological Data Visualization (BioVis), Atlanta, USA, 13.-14.10., ISBN 978-1-4799-1658-0,
DOI: 10.1109/BioVis.2013.6664345,
[Conference or Workshop Item]

Klann, M. ; Koeppl, H. (2013):
Reaction schemes, escape times and geminate recombinations in particle-based spatial simulations of biochemical reactions.
In: Physical biology, 10 (4), pp. 046005. [Article]

Klann, M. ; Paulevé, L. ; Petrov, T. ; Koeppl, H. (2013):
Coarse-Grained Brownian Dynamics Simulation of Rule-Based Models.
8130, pp. 64-77, Springer Berlin Heidelberg, 11th International Conference on Computational Methods in Systems Biology (CMSB 2013), [Conference or Workshop Item]

Klann, M. ; Ganguly, A. ; Koeppl, H. (2012):
Hybrid spatial Gillespie and particle tracking simulation.
In: Bioinformatics (Oxford, England), 28 (18), pp. i549. [Article]

Hiroi, N. ; Klann, M. ; Iba, K. ; de Heras Ciechomski, P. ; Yamashita, S. ; Tabira, A. ; Okuhara, T. ; Kubojima, T. ; Okada, Y. ; Oka, K. ; Mange, R. ; Unger, M. ; Funahashi, A. ; Koeppl, H. (2012):
From microscopy data to in silico environments for in vivo-oriented simulations.
In: EURASIP Journal on Bioinformatics and Systems Biology, 2012 (1), p. 7. [Article]

Klann, M. ; Koeppl, H. ; Reuss, M. (2012):
Spatial modeling of vesicle transport and the cytoskeleton: the challenge of hitting the right road.
In: PloS one, 7 (1), pp. e29645. [Article]

Klann, M. ; Koeppl, H. (2012):
Spatial simulations in systems biology: from molecules to cells.
In: International journal of molecular sciences, 13 (6), pp. 7798-7827. [Article]

Klann, M. ; Koeppl, H. (2012):
Spatial stochastic simulation of transcription factor binding reveals mechaniscms to control gene activation.
61, pp. 51-54, Tampere University of Technology, Tampere International Center for Signal Processing, 9th International Workshop on Computational Systems Biology (WCSB 2012), [Conference or Workshop Item]

Klann, M. ; Ganguly, A. ; Koeppl, H. (2011):
Improved Reaction Scheme for Spatial Stochastic Simulations with Single Molecule Detail.
57, pp. 93-96, Tampere, Tampere University of Technology, Eighth International Workshop on Computational Systems Biology (WCSB 2011), [Conference or Workshop Item]

Falk, M. ; Ott, M. ; Ertl, T. ; Klann, M. ; Koeppl, H. (2011):
Parallelized Agent-based Simulation on CPU and Graphics Hardware for Spatial and Stochastic Models in Biology Categories and Subject Descriptors.
In: CMSB '11 Proceedings of the 9th International Conference on Computational Methods in Systems Biology, pp. 73-82,
New York, New York, USA, ACM Press, [Conference or Workshop Item]

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