Articles
2020
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Quantification of Nematic Cell Polarity in Three-dimensional Tissues
PLOS Comp. Biol. 16 (12), e1008412, 2020 [DOI] -
A modular framework for multiscale, multicellular, spatiotemporal modeling of acute primary viral infection and immune response in epithelial tissues and its application to drug therapy timing and effectiveness.
PLOS Comp. Biol. 16 (12), e1008451, 2020 [DOI] -
Entropy-driven cell decision-making predicts "fluid-to-solid" transition in multicellular systems
New Journal of Physics in press, 2020 [DOI] -
Cell–cell adhesion and 3D matrix confinement determine jamming transitions in breast cancer invasion
Nature Cell Biology 22, 1103–1115, 2020 [DOI] -
Multi-scale analysis and modelling of collective migration in biological systems
Philosophical Transactions of the Royal Society B: Biological Sciences 375 (1807), 20190377, 2020 [DOI] -
An environment for sustainable research software in Germany and beyond: current state, open challenges, and call for action
F1000Research 9, 295, 2020 [DOI] -
A phase-field approach to trabecular bone remodeling
Frontiers in Applied Mathematics and Statistics 6, 12, 2020 [DOI] -
Cellular Automaton Modeling of Tumor Invasion
Encyclopedia of Complexity and Systems Science (Ed. R. A. Meyers, Springer Berlin), 1-13, 2020 [DOI] -
A dynamic cell recruitment process drives growth of the Drosophila wing by overscaling the Vestigial expression pattern
Developmental Biology 462 (2), 141-151, 2020 [DOI] -
Bile canaliculi remodeling activates YAP via the actin cytoskeleton during liver regeneration
Molecular Systems Biology 16 (2), e8985, 2020 [DOI] -
Modeling collective cell motion: are on- and off-lattice models equivalent?
Philosophical Transactions B 375 (1807), 20190378, 2020 [DOI] -
Molecular characterization of astrocytoma progression towards secondary glioblastomas utilizing patient-matched tumor pairs
Cancers 12 (6), 1696, 2020 [DOI]
2019
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Three-dimensional spatially resolved geometrical and functional models of human liver tissue reveal new aspects of NAFLD progression
Nature Medicine 25, 1885–1893, 2019 [DOI] -
Mutual Zonated Interactions of Wnt and Hh Signaling Are Orchestrating the Metabolism of the Adult Liver in Mice and Human
Cell Reports 29, 4553–4567.e7, 2019 [DOI] -
Dynamic Polarization of the Multiciliated Planarian Epidermis between Body Plan Landmarks, Developmental Cell 51, 526–542.e6, 2019 [DOI] -
Liquid-crystal organization of liver tissue, eLife 8, e44860, 2019 [DOI] -
Statistical and mathematical modeling of spatiotemporal dynamics of stem cells
in Methods in Molecular Biology, Klein and Wuchter(Eds.), Springer Protocols, Humana Press 219-243, 2019 [DOI] -
Patterns of tumor progression predict small and tissue-specific tumor-originating niches
Front. Oncol., 8, 668, 2019 [DOI] -
Stem cell-associated heterogeneity in Glioblastoma results from intrinsic tumor plasticity shaped by the microenvironment
Nature Communications 10 (1), 1787, 2019 [DOI] -
Analysis of microscopic bone properties in an osteoporotic sheep model - A combined biomechanics, FE and ToF-SIMS study
Journal of the Royal Society Interface 16 (151), 20180793, 2019 [DOI] -
Wet-tip versus dry-tip regimes of osmotically driven fluid flow
Scientific Reports, 9, 4528, 2019 [DOI] -
A Lattice-Gas Cellular Automaton Model for Discrete Excitable Media
in Spirals and Vortices, Müller and Tsuji(Eds.), Chapter - 15, 253-264, Springer, 2019 [DOI] -
Automated detection of the HER2 gene amplification status in Fluorescence in situ hybridization images for the diagnostics of cancer tissues
Scientific Reports, 9, 8231, 2019 [DOI]
2018
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Signaling-Dependent Control of Apical Membrane Size and Self-Renewal in Rosette-Stage Human Neuroepithelial Stem Cells, Stem Cell Reports 10, 1751 - 1765, 2018 [DOI] -
Whither Systems Medicine?
Experimental & Molecular Medicine, 50, e453, 2018 [DOI] -
Sequence-dependent catalytic regulation of the SpoIIIE motor activity ensures directionality of DNA translocation
Scientific Reports, 8, 1, 5254, 2018 [DOI] -
Hook length of the bacterial flagellum is optimized for maximal stability of the flagellar bundle
PLOS Biology, 16, 9, e2006989, 2018 [DOI]
2017
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The biology and mathematical modelling of glioma invasion: a review
Journal of the Royal Society Interface, 14, 136, 20170490, 2017 [DOI] -
CellTrans: An R package to quantify stochastic cell state transitions
Bioinformatics and Biology Insights, 11, 1-14, 2017 [DOI] -
Arginine Deprivation Therapy: Putative Strategy to Eradicate Glioblastoma Cells by Radiosensitization
Molecular Cancer Therapeutics, 17 (2), 393-406, 2017 [DOI] -
A dynamically diluted alignment model reveals the impact of cell turnover on the plasticity of tissue polarity patterns
Journal of The Royal Society Interface, 14, 135, 20170466, 2017 [DOI] -
Familial chilblain lupus due to a gain-of-function mutation in STING
Ann Rheum Dis, 76, 468-472, 2017 [DOI] -
Obituary: Hans Meinhardt (1938–2016)
Bull. Math. Biol., 79, 2, 383-388, 2017 [DOI] -
A predictive 3D multi-scale model of biliary fluid dynamics in the liver lobule
Cell Systems, 4, 3, 277–290.e9, 2017 [DOI] -
Cellular automaton models for time-correlated random walks: derivation and analysis
Scientific Reports, 7, 1, 16952, 2017 [DOI] -
Extracting cellular automaton rules from physical Langevin equation models for single and collective cell migration
J. Math. Biol., 75, 5, 1075-1100, 2017 [DOI] -
pSSAlib: The partial-propensity stochastic chemical network simulator
PLoS Computational Biology, 13, 12, e1005865, 2017 [DOI] -
Cell adhesion heterogeneity reinforces tumour cell dissemination: novel insights from a mathematical model
Biology Direct, 12, 1, 18, 2017 [DOI] -
Amoeboid-mesenchymal migration plasticity promotes invasion only in complex heterogeneous microenvironments
Scientific Reports, 7, 9237, 2017 [DOI]
2016
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Why one-size-fits-all vaso-modulatory interventions fail to control glioma invasion: in silico insights
Scientific Reports, 6, 37283, 2016 [DOI] -
In-silico insights on the prognostic potential of immune cell infiltration patterns in the breast lobular epithelium
Scientific Reports, 6, 33322, 2016 [DOI] -
Live imaging of axolotl digit regeneration reveals spatiotemporal choreography of diverse connective tissue progenitor pools
Dev Cell, 39, 4 411-423, 2016 [DOI] -
Dynamic Regulation of Cell Volume and Extracellular ATP of Human Erythrocytes
PLoS ONE, 11, 6, e0158305, 2016 [DOI] -
The extrinsic noise effect on lateral inhibition differentiation waves
Transactions on Modeling and Computer Simulation, 26, 3, 19, 2016 [DOI] -
Accelerated cell divisions drive the outgrowth of the regenerating spinal cord in axolotls
eLife, 5, e20357, 2016 [DOI] -
Open channel current noise analysis of S6 peptides from KvAP channel on bilayer lipid membrane shows bimodal power law scaling
Physica A: Statistical Mechanics and its Applications, 451, 533-540, 2016 [DOI] -
The Water to Solute Permeability Ratio Governs the Osmotic Volume Dynamics in Beetroot Vacuoles
Front Plant Sci, 7, 1388, 2016 [DOI]
2015
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A dose-volume histogram based decision-support system for dosimetric comparison of radiotherapy treatment plans
Radiation Oncology, 10, 1, 1-9, 2015 [DOI] -
An Emerging Allee Effect Is Critical for Tumor Initiation and Persistence
PLoS Comput Biol, 11, 9, e1004366, 2015 [DOI] -
Model-Based Evaluation of Spontaneous Tumor Regression in Pilocytic Astrocytoma
PLoS Comput Biol, 11, 12, e1004662, 2015 [DOI] -
Cooperativity in binding processes: New insights from phenomenological modeling
PLoS ONE, 10(12), e0146043, 2015 [DOI] -
Mathematical modelling of fluid transport and its regulation at multiple scales
BioSystems, 130, 1-10, 2015 [DOI] -
Cellular automaton models for collective cell behaviour
Lecture Notes in Computer Science, 9099, 1-10, 2015 [DOI] -
Theory of cargo and membrane trafficking. In Stahl and Bradshaw (Eds.)
Encyclopedia of Cell Biology, Elsevier, Vol.4: Systems Cell Biology, 56-62, 2015 [DOI] -
Defective removal of ribonucleotides from DNA promotes systemic autoimmunity
J Clin Invest, 125(1), 413-24, 2015 [DOI] -
Cancer therapeutic potential of combinatorial immuno- and vasomodulatory interventions
Journal of The Royal Society Interface, 12, 1112, 2015 [DOI] -
Model-based comparison of cell density-dependent cell migration strategies
Mathematical Modelling Natural Phenomena, 10, 1, 94-107, 2015 [DOI] -
Image-based quantification and mathematical modeling of spatial heterogeneity in ESC colonies
Cytometry, Part A, 87, 481–490, 2015 [DOI] -
Analysis of Individual Cell Trajectories in Lattice-Gas Cellular Automaton Models for Migrating Cell Populations
Bulletin of Mathematical Biology, 77, 4, 1-38, 2015 [DOI] -
Planar cell polarity-mediated induction of neural stem cell expansion during axolotl spinal cord regeneration
eLife, 4, e10230, 2015 [DOI] -
Comparative Transcriptomics Reveals Similarities and Differences between Astrocytoma Grades
BMC Cancer, 15, 1, 1-22, 2015 [DOI] -
Impaired extracellular matrix structure resulting from malnutrition in ovariectomized mature rats
Histochemistry and Cell Biology, 144, 2015 [DOI] -
Cellular dynamics underlying regeneration of appropriate segment number during axolotl tail regeneration
BMC Developmental Biology, 15, 1, 48, 2015 [DOI] -
Self-propelled rods exhibit a novel phase-separated state characterized by the presence of active stresses and the ejection of polar clusters.
Physical Review E, 92, 1, 012322, 2015 [DOI]
2014
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Adaptive diffuse domain approach for calculating mechanically induced deformation of trabecular bone
Comp. Meth. in Biomech. and Biomed. Eng., 17, 1, 31-38, 2014 [DOI] -
Kinetics of bioaccumulation of heavy metals in Odontesthes bonariensis is explained by a single and common mechanism
Ecol. Mod., 274, 50-58, 2014 [DOI] -
Evolutionary game theory: molecules as players
Mol. BioSyst., 10, 3066-3074, 2014 [DOI] -
Mathematical modeling of regenerative processes
Curr. Top. Dev. Biol., 108, 283-317, 2014 [DOI] -
How Does a Single Cell Know When the Liver Has Reached Its Correct Size?
PLoS ONE, 9, 4, e93207, 2014 [DOI] -
Evolutionary game theory: cells as players
Mol. BioSyst., 10, 3044-3065, 2014 [DOI] -
Change of mechanical vertebrae properties due to progressive osteoporosis: combined biomechanical and finite-element analysis within a rat model
Med. Biol. Eng. Comput., 52, 4, 405-414, 2014 [DOI] -
Chevron formation of the zebrafish muscle segments
J. Exp. Biol., 217, 21, 3870-3882, 2014 [DOI] -
GlioMath-DD: A multidisciplinary approach to study glioma evolution and identify targets for individualized therapies
Proceedings of the 105th Annual Meeting of the AACR, Cancer Research, 74, 19 Supplement, Abstract nr 5341, 2014 [DOI] -
Autoregressive Higher-Order Hidden Markov Models: Exploiting Local Chromosomal Dependencies in the Analysis of Tumor Expression Profiles
PLoS ONE, 9, 6, e100295, 2014 [DOI] -
Morpheus: a user-friendly modeling environment for multiscale and multicellular systems biology
Bioinformatics, 30, 1331-1332, 2014 [DOI] -
Residence times and boundary-following behavior in animals
Phys. Rev. E, 89, 5, 052715, 2014 [DOI] -
Enabling multiscale modeling in systems medicine
Genome Medicine 6, 3, 2014 [DOI] -
Determination of the Young’s modulus of porous ß-type Ti–40Nb by finite element analysis
J. Mat. Des. 64, 1-8, 2014 [DOI]
2013
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Copy number variation in transcriptionally active regions of sexual and apomictic Boechera demonstrates independently-derived apomictic lineages
Plant Cell, 25, 10, 3808-3823, 2013 [DOI] -
MultiChIPmixHMM: an R package for ChIP-chip data analysis modeling spatial dependencies and multiple replicates
BMC Bioinformatics, 9, 271, 2013 [DOI] -
Meiotic cohesin SMC1β provides prophase I centromeric cohesion and is required for multiple synapsis-associated functions
PLoS Genet., 9, 12, 2013 [DOI] -
Mechanisms of interaction between Candida albicans and Streptococcus mutans: An experimental and mathematical modelling study
Acta Odontol. Scand., 71, 3-4, 416-423, 2013 [DOI] -
SpoIIIE mechanism of directional translocation involves target search coupled to sequence-dependent motor stimulation
EMBO Rep., 14, 5, 473-479, 2013 [DOI] -
Transdifferentiation of pancreatic cells by loss of contact-mediated signaling
BMC Syst. Biol., 7, 77, 2013 [DOI] -
The epidemiological consequences of leprosy-tuberculosis co-infection
Math. Biosci., 241, 2, 225-237, 2013 [DOI] -
Naturally occurring genetic variants of human caspase-1 differ considerably in structure
and the ability to activate interleukin-1β
Hum. Mutat., 34, 1, 122-131, 2013 [DOI] -
Dynamics of VEGF matrix-retention in vascular network patterning.
Phys. Biol., 10, 6, 066007, 2013 [DOI] -
Phosphorylation of the Smo tail is controlled by membrane localization and is dispensable for clustering
J. Cell Sci., 126, 20, 4684-4697, 2013 [DOI] -
Molecular dynamics of water in the neighborhood of aquaporins
Eur. Biophys. J. , 42, 4, 223-239, 2013 [DOI] -
Progressive specification rather than intercalation of segments during limb regeneration
Science , 342, 6164, 1375-9, 2013 [DOI] -
Single-stranded nucleic acids promote SAMHD1 complex formation
J. Mol. Med. (Berl), 91, 6, 759-770, 2013 [DOI] -
Cellular Potts Model
In: Dubitzky et al. (eds.), Encyclopedia of Systems Biology, Springer, 2013
[Encyclopedia of Systems Biology] -
Interacting Cell Systems
In: Dubitzky et al. (eds.), Encyclopedia of Systems Biology, Springer, 2013
[Encyclopedia of Systems Biology]
2012
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Aquaporins: Another piece in the osmotic puzzle
FEBS Lett., 586, 19, 2991-2999, 2012 [DOI] -
Investigation of the migration/proliferation dichotomy and its impact on avascular glioma invasion
Math. Model. Nat. Phenom., 7, 1, 105-135, 2012 [DOI] -
On the role of lateral stabilization during early patterning in the pancreas
J. R. Soc. Interface, 10, 20120766, 2012 [DOI] -
Collective motion in biological systems
Interface Focus, 2, 6, 689-692, 2012 [DOI] -
Aggregation of non-polar solutes in water at different pressures and temperatures:
The role of hydrophobic interaction
J. Chem. Phys., 137, 13, 135104, 2012 [DOI] -
A general theoretical framework to infer endosomal network dynamics from quantitative
image analysis
Curr. Biol., 22, 15, 1381 - 1390, 2012 [DOI] -
‘Go or Grow’: the key to the emergence of invasion in tumour progression?
Math. Med. Biol., 29, 1, 49-65, 2012 [DOI] -
A lattice-gas cellular automaton model for in vitro sprouting angiogenesis
Acta Phys. Pol. B, 5, 1, 99-115, 2012 [DOI] -
Collective motion and nonequilibrium cluster formation in colonies of gliding bacteria
Phys. Rev. Lett., 108, 9, 098102, 2012 [DOI] -
Morphogenesis and dynamics of multicellular systems
ECMI Newsletter 52, 2012 -
Pattern-formation mechanisms in motility mutants of Myxococcus xanthus
Interface Focus, 2, 6, 774-785, 2012 [DOI] -
Multi-scale modeling in morphogenesis: a critical analysis of the cellular potts model
PLoS ONE, 7, 9, e42852, 2012 [DOI]
2011
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Computational analysis of the influence of microenvironment on carcinogenesis
Math. Biosci., 229, 1, 22-29, 2011 [DOI] -
Effect of intestinal pressure on fistula closure during vacuum assisted treatment: a computational approach
Int J Surg., 9, 8, 662-668, 2011 [DOI] -
Regulatory volume decrease and P receptor signaling in fish cells: mechanisms, physiology, and modeling approaches
J. Exp. Zool. A Ecol. Genet. Physiol., 315A, 175-202, 2011 [DOI] -
Crossover between tetrahedral and hexagonal structures in liquid water
Phys. Lett. A., 375, 572-576, 2011 [DOI] -
Analysis of lattice-gas cellular automaton models for tumor growth by means of fractal scaling
Acta Phys. Pol. B. Proc. Suppl., 4, 2, 167, 2011 [DOI] -
Evolutionary Robotics
In: S. Craig Roberts (ed.), Applied Evolutionary Psychology, Oxford University Press, 2011
[Oxford University Press] -
Early embryonic vascular patterning by matrix-mediated paracrine signalling: a mathematical model study
PLoS One, 6, 9, e24175, 2011 [DOI] -
Nutritional resources as positional information for morphogenesis in the stony coral stylophora pistillata
J. Theor. Biol., 275, 1, 70 - 77, 2011 [DOI] -
Chemotaxis of mesenchymal stem cells within 3D biomimetic scaffolds--a modeling approach
J. Biomech., 44, 2, 359 - 364, 2011 [DOI] -
The CORALZOO project: a synopsis of four years of public aquarium science
JMBA, 1-16, 2011 [DOI] -
Traffic jams, gliders and bands in the quest for collective motion of self-propelled particles
Phys. Rev. Lett., 106, 12, 128101, 2011 [DOI] -
Universal synthesizer and window: Cellular automata as a new kind of cybernetic images
In: O. Grau (ed.), Imagery in the 21st century, MIT Press, 2011
[MIT Press] -
Identification of intrinsic mechanisms for glioma invasion
J. Theor. Biol., 287, 131-147, [DOI] -
On the core property of the cylinder functions class in the construction of interacting particle systems
Kybernetica, 47, 6, 944-957, [DOI] -
On the duality relation between interacting particle systems and Markov chains
Markov Proc. Rel. Fields, 17, 3, 315-346, 2011 -
Management of external small bowel fistulae: Challenges and controversies confronting the general surgeon
Int. J. Surg., 9, 3, 198-203, 2011 [DOI] -
Applying dimorphic yeasts as model organisms to study mycelial growth: Part 1. Experimental investigation of the spatio-temporal development of filamentous yeast colonies.
Bioprocess. Biosyst. Eng., 34, 1, 13-20, 2011 [DOI] -
Applying dimorphic yeasts as model organisms to study mycelial growth: part 2. Use of mathematical simulations to identify different construction principles in yeast colonies
Bioprocess. Biosyst. Eng., 34, 21-31, 2011 [DOI] -
Predicting pancreas cell fate decisions and reprogramming with a hierarchical multi-attractor model
PLoS ONE 6, 3, e14752, 2011 [DOI]
2010
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From cells to organisms: current topics in mathematical and theoretical biology
Acta Biotheor., 58, 4, 307-313, 2010 [DOI] -
Lattice-gas cellular automaton models for biology: From fluids to cells
Acta Biotheor., 58, 4, 329-340, 2010 [DOI] -
Modeling discrete combinatorial systems as alphabetic bipartite networks: Theory and applications
Phys. Rev. E, 81, 036103, 2010 [DOI] -
A model for cyst lumen expansion and size regulation via fluid secretion
J. Theor. Biol., 264, 1077-1088, 2010 [DOI] -
Lattice-gas cellular automaton modeling of emergent behavior in interacting cell populations
In: Simulating complex systems by cellular automata 301-331, 2010 [DOI] -
'Go or Grow': the key to the emergence of invasion in tumour progression?
Math. Med. Biol., 29, 1, 49-65, 2010 [DOI] -
Prediction of traveling front behavior in a lattice-gas cellular automaton model for tumor invasion
Comput. Math. Appl., 59, 2326-2339, 2010 [DOI] -
From cellular automaton rules to an effective macroscopic mean-field description
Acta Phys. Pol. B Proc. Suppl., 3, 399-416, 2010 [PDF] -
Parameter estimation with a novel gradient-based optimization method for biological lattice-gas cellular automaton models
J. Math. Biol., 63, 1, 173-200, 2010 [DOI] -
Ligand-specific c-Fos expression emerges from the spatiotemporal control of ErbB network dynamics
Cell, 141, 884-896, 2010 [DOI] -
Coverage-maximization in networks under resource constraints
Phys. Rev. E, 81, 061124, 2010 [DOI] -
The cellular basis of cell sorting kinetics
J. Theor. Biol., 263, 419-436, 2010 [DOI]
2009
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Computational cell biology
In: J. Math. Biol., special issue
Springer, 2009 [DOI] -
On the approximation of transport phenomena - a dynamical systems approach
In: GAMM Mitteilungen 32
Wiley-VCH, 47-60, 2009 -
Cellular automaton models for tumor invasion
In: Encyclopedia of complexity and systems science
Springer, 2009 -
Biologistics and the struggle for efficiency: concepts and perspectives
Advances in Complex Systems, 12, 533-548, 2009 [DOI] -
Local expansion concepts for detecting transport barriers in dynamical systems
In: Communications in Nonlinear Science and Numerical Simulations / 14 (12)
ScienceDirect, Elsevier, 4176-4190, 2009 -
Biosimulation of drug metabolism--A yeast based model
European Journal of Pharmaceutical Sciences, 36, 157-170, 2009 [DOI]
2008
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Computational cell biology: second theme issue on “computational biology"
J. Math. Biol., 58, 1-5, 2008 -
Evolutionary game theory elucidates the role of glycolysis in glioma progression and invasion
Cell Prolif., 41, 980, 2008 [DOI] -
A game theoretical perspective on the somatic evolution of cancer
In: Selected topics on cancer modelling: genesis, immune competition, therapy
Birkhäuser, Boston, 2008 [DOI] -
Studying the emergence of invasiveness in tumours using game theory
Europ. Phys. J., 63, 393-397, 2008 [DOI] -
Protein domains of GTPases on membranes: do they rely on Turing's mechanism?
In: Mathematical Modeling of Biological Systems, Volume I.
Birkhauser, Boston, 33-46, 2008 [DOI] -
The coherence of the vesicle theory of protein secretion
J. Theor. Biol., 252, 370-373, 2008 [DOI] -
Membrane identity and GTPase cascades regulated by toggle and cut-out switches
Mol. Syst. Biol., 4, 206, 2008 [DOI] -
Bio-inspired Search and Distributed Memory Formation on Power-Law Networks
In: Parallel Problem Solving from Nature - PPSN X
Springer, 5199, 154-164, 2008 -
Cellular automata as microscopic models of cell migration in heterogeneous environments
Curr. Top. Dev. Biol., 401-434, 2008 [DOI] -
An osmoregulatory basis for shape oscillations in regenerating Hydra
Biophys J, 95, 978-985, 2008 [DOI] -
Stability Analysis of Peer-to-Peer Networks Against Churn
Pramana - J. Phys., 71, 2008 -
Coverage Maximization in Small World Network Under Bandwidth Constraint
In: SIGCOMM 2008 Conference on Applications, Technologies, Architectures, and Protocols for Computer Communications
ACM, 481-482, 2008 -
Dynamics and Steady States in Excitable Mobile Agent Systems
Physical Review Letters, 100, 168103, 2008 [DOI] -
A mean-field theory for self-propelled particles interacting by velocity alignment mechanisms
Eur. Phys. J., 157, 2008 [DOI] -
Bacterial swarming driven by rod shape
In: Mathematical Modeling of Biological Systems, Volume I: Cellular Biophysics, Regulatory Networks, Development, Biomedicine, and Data Analysis
Birkhauser, 2008 [DOI]
2007
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Biosimulation in Drug Development
Wiley-VCH, Weinheim, 37-64, 2007 -
Lattice-gas cellular automaton modelling of morphogenetic motion in developing cell systems
In: Single Cell Based Models in Biology and Medicine
Birkhauser, Basel, 2007 -
A bio-inspired algorithm for location search in peer to peer network "Advances in biologically inspired information systems: models, methods, and tools"
In: Springer series in Computational Intelligence
2007 -
A new mechanism for collective migration in M. xanthus
J. Stat. Phys., 128, 269-286, 2007 [DOI]
2006
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Design patterns from biology for distributed computing
ACM Trans. Auton. Adapt. Syst., 1, 26-66, 2006 [DOI] -
Ethanol production with micro-organisms. Process control and modelling
In: Proceedings of the 18th ECMI modelling week
Lappeenrannan teknillinen yliopisto, Lappeenranta, 9-23, 2006 -
A generalized discrete model linking rippling pattern formation and individual cell reversal statistics in colonies of myxobacteria
Phys. Biol., 3, 138-146, 2006 [DOI] -
Chemotaxis-inspired load balancing
Complexus, 3, 8-23, 2006 [DOI] -
Modelling cooperative phenomena in interacting cell systems with cellular automata
In: BIOMAT 2005: Proceedings of the International Symposium on Mathematical and Computational Biology Rio de Janeiro, Brazil 3 - 8 December 2005
World Scientific, Singapore, 2006 -
Characterization of Travelling Front Behaviour in a Lattice Gas Cellular Automaton Model of Glioma Invasion
Math. Mod. Meth. Appl. Sci., 15, 1779-1794, 2006 [DOI] -
Towards in vivo computing: Quatitative analysis of an artificial gene regulatory network behaving as a RS flip-flop and simulating the system in silico
In: Bio-Inspired Models of Network, Information and Computing Systems
IEEE, 1-7, 2006 [DOI] -
Non-equilibrium clustering of self-propelled rods
Phys. Rev. E, 74, 030904, 2006 -
Modeling of pattern development during fibronectin nanofibril formation
Biointerphases, 1, 93-97, 2006 [DOI]
2005
-
On a discrete Boltzmann-type model of swarming
Math. Comp. Model., 41, 1193-1201, 2005 [DOI] -
Parallel dynamic and kinetic regular triangulation in three dimensions
Comput. Phys. Commun., 172, 86-108, 2005 [DOI] -
Spiral instabilities in periodically forced extended oscillatory media
In: EQUADIFF 2003-International Conference on Differential equations
World Scientific, Singapore, 777-782, 2005 [DOI] -
Cell cycle synchronization of Cupriavidus necator by continuous phasing measured via flow cytometry
Biotechnol. Bioeng., 92, 635-642, 2005 -
Design and analysis of a bio-inspired search algorithm for peer-to-peer networks
In: Self-Star Properties in Complex Information Systems
Springer-Verlag, Heidelberg, 3460, 2005 [DOI] -
Mathematical modelling of glioblastoma development: a review
Math. Mod. Meth. Appl. Sci., 15, 1779-1794, 2005 [DOI] -
Mathematical Modelling of Glioblastoma Tumor Development: a Review
Math Mod Meth Appl S, 15, 1779-1794, 2005 -
Coordinated development of yeast colonies. A) Experimental analysis of the adaptation to different nutrient concentrations
Eng. Life Sci., 5, 115-124, 2005 [DOI] -
Coordinated development of yeast colonies. B) Quantitative modeling of diffusion-limited growth
Eng. Life Sci., 5, 125-133, 2005 [DOI] -
Cancer cell invasion of brain tissue: guided by a prepattern?
J. Theor. Medic., 6, 21-31, 2005 [DOI] -
Brain cancer invasion of brain tissue: guided by a prepattern
J. Theor. Medic., 6, 21-31, 2005
2004
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Model evaluation for glycolytic oscillations in yeast biotransformations of xenobiotics
Biophys. Chem., 109, 413-426, 2004 [DOI] -
Comment on "Antispiral Waves in Reaction-Diffusion Systems" [3] (multiple letters)
Phys. Rev. Lett., 92, 898011-898021, 2004 [DOI] -
Breakup of spiral waves caused by radial dynamics: Eckhaus and finite wave number instabilities
New J. Phys., 6, 5, 2004 [DOI] -
Mechanism for spiral wave breakup in excitable and oscillatory media.
Phys. Rev. Lett., 92, 119801, 2004 [DOI] -
Pattern formation in an interacting cell system: rippling in myxobacterial aggregates
In: Function and regulation of cellular systems: experiments and models
Birkhauser, Basel, 2004 -
Sporenmuster bei Schlauchpilzen
In: Wenn Monster munter werden -- einfache Experimente aus der Biologie
Wiley-VCH, Weinheim, 2004 -
Mathematical and Theoretical Biology: a European Perspective
Science Next Wave (online journal), 12 March, 2004 -
Cell-based models of avascular tumor growth
In: Function and regulation of cellular systems: experiments and models
Birkhauser, Basel, 2004 -
Design of a robust search algorithm for p2p networks
In: Proceedings of the 11th International Conference on High Performance Computing
Bangalore, India, 2004 [DOI] -
A cellular automata model for an immune based search algorithm
In: Proceedings of the Sixth International Conference on Cellular Automata for Research and Industry (ACRI 2004)
Springer, Amsterdam, Netherlands, 3305, 2004 -
Design of an efficient search algorithm for p2p networks using concepts from natural immune systems
In: Proceedings of the 8th International Conference on Parallel Problem Solving from Nature (PPSN VIII)
Birmingham, UK, 2004 [DOI] -
Developing efficient search algorithms for p2p networks using proliferation and mutation
In: Proceedings of the International Conference on Artificial Immune Systems
Catania, Italy, 2004 [DOI] -
Modelling tumour cell population dynamics based on molecular adhesion assumptions
J. Biol. Sc., 12, 273-288, 2004 -
Pigment pattern formation in zebrafish during late larval stages: A model based on local interactions
Developm. Dyn., 232, 33-42, 2004 [DOI] -
Antispiral waves as sources in oscillatory reaction-diffusion media
J Phys Chem B, 108, 14733-14740, 2004 [DOI] -
Mathematical modeling of regulatory mechanisms in yeast colony development
J. Theor. Biol., 229, 327-338, 2004 [DOI]
2003
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Doppler Effect of Nonlinear Waves and Superspirals in Oscillatory Media
Phys Rev Lett, 91, 1083021-1083024, 2003 [DOI] -
Nonlinear analysis of the Eckhaus instability: Modulated amplitude waves and phase chaos with nonzero average phase gradient
Phys D Nonlinear Phenom, 174, 152-167, 2003 [DOI] -
Antispiral and superspiral waves
Wiss. Z. TU Dresden, 52, 55-58, 2003 -
Individual-based models of cell flocking
In: Polymer and cell dynamics: multicsale modeling and numerical simulations
Birkhäuser, Basel, 2003 -
Mathematical modelling and simulation of interacting cell systems with cellular automata
In: Computational fluid and solid dynamics
Elsevier, Amsterdam, 2003 -
Modelling thin-film dewetting on structured substrates and templates: Bifurcation analysis and numerical simulations
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2002
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Dewetting of thin films on heterogeneous substrates: Pinning versus coarsening
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Fold-Hopf bursting in a model for calcium signal transduction
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Rippling Patterns in Aggregates of Myxobacteria Arise from Cell-Cell Collisions
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Mathematical modelling and simulation of interacting cell systems with cellular automata
J. Medic. Inform. Technol., 3, 3-6, 2002 -
Principles and mathematical modeling of biological pattern formation
Mat. Stos., 3, 16-38, 2002 -
Modeling of self-organized avascular tumor growth with a hybrid cellular automaton
In Silico Biol., 2, 393-406, 2002 -
Cellular automaton models of tumour development -- a critical review
Adv. Compl Syst. (ACS), 5, 1-21, 2002
2001
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Modulated amplitude waves and defect formation in the one-dimensional complex Ginzburg-Landau equation
Phys D Nonlinear Phenom, 160, 127-148, 2001 [DOI] -
Modelling interacting cell systems in biology and medicine with cellular automata
In: Proceedings of the German Conference on Bioinformatics
Braunschweig, 2001 -
Fourier analysis of Turing-like pattern formation in cellular automaton models
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Recycling probability and dynamical properties of germinal center reactions
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2000
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Modulated amplitude waves and the transition from phase to defect chaos
Phys Rev Lett, 85, 86-89, 2000 [DOI] -
A new mechanism of aggregation in a lattice-gas cellular automaton model
Math. Comp. Mod., 31, 35-40, 2000 [DOI]
1999
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Probabilistic lattice models of collective motion and aggregation; from individual to collective dynamics
Mathem. Biosc., 156, 255-269, 1999 [DOI] -
Principles of morphogenetic motion: swarming and aggregation viewed as self-organization phenomena
J. Biosc., 24 (1), 115-120, 1999 -
A new simple version of the replica method
J. Phys. A, 32, 585-593, 1999 [DOI] -
Simplified replica treatment of various random-energy and random-field models with confinement potential
Phys. Rev. E, 60, 3573-3579, 1999 [DOI]
1997
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Mean-field analysis of a dynamical phase transition in a cellular automaton model for collective motion
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Models for spatio-angular self-organization in cell biology
In: Dynamics of cell and tissue motion
Birkhäuser, Basel, 173-182, 1997
1996
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Zur Entwicklung der theoretischen Biologie: Aspekte der Modellbildung und Mathematisierung
Jahrb. Gesch. Theorie Biol., 3, 7-60, 1996 -
Orientation-induced pattern formation: Swarm dynamics in a lattice-gas automaton model
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Lattice-gas approach to collective transport phenomena in biological pattern formation
In: Nonlinear Physics of Complex Systems -- Current Status and Future Trends
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1995
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Towards analyzing complex swarming patterns in biological systems with the help of lattice-gas cellular automata
J. Biol. Syst., 3, 947-955, 1995 [DOI]
1994
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Muster, Modelle, Simulationen - Neue Wege zum Verständnis von Strukturbildung in der Natur
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Vieweg, Wiesbaden, 1-38, 1994 -
Das Sein bestimmt das Gestaltsein
In: Muster des Lebendigen
Vieweg, Wiesbaden, 91-108, 1994
1993
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Introduction and Overview
In: Oscillations and morphogenesis
Marcel Dekker, New York, 1-23, 1993 -
A Novel Cellular Automaton Approach to Pattern Formation by Filamentous Fungi
In: Oscillations and Morphogenesis
Marcel Dekker, Inc., 463-480, 1993 -
Zelluläre Automaten als Modelle von Musterbildungsprozessen in biologischen Systemen
In: Informatik in den Biowissenschaften
Springer, Berlin, 181-192, 1993 -
Formation of morphological differentiation patterns in the ascomycete N eurospora crassa
Mech. Develop., 44, 17-31, 1993 -
A novel cellular automaton approach to pattern formation by filamentous fungi
In: Oscillations and morphogenesis
Marcel Dekker, New York, 463-480, 1993 -
Sporenmusterbildung beim Schlauchpilz N eurospora crassa
Biol. in uns. Zeit, 23, 259-264, 1993 -
Oscillations and morphogenesis -- introduction and overview
In: Oscillations and morphogenesis
Marcel Dekker, New York, 1-23, 1993
1991
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Patterns of spore formation in N eurospora crassa and their simulation with a cellular automaton
In: Nonlinear wave processes in excitable media
Plenum, New York, 259-267, 1991
1990
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Ordnungsprinzipien periodischer Strukturen
Biol. in uns. Zeit, 20, 314-321, 1990 [DOI]