Publications

Master, PhD and Habilitation Theses:

Lebiedz, D. Isolierung der Promotorregion und der Splice-Varianten des monocytären cysteinreichen
Scavengerrezeptors CD163 (RM3/1), Diploma thesis Biochemistry, University of Münster, 1998

Lebiedz, D. Wasserstoffinduzierte Effekte im System Nd2(Fe/Co)14B - Eine SIMS- und XPS-Studie -,
PhD thesis Physical Chemistry, University of Münster, 2001

Lebiedz, D. Numerische Simulation und optimale Steuerung von parabolischen Differentialgleichungen
in Chemotaxis-Modellen, Diploma thesis Applied Mathematics, University of Münster, 2002

Lebiedz, D. Optimal Control, Model- and Complexity-Reduction of Self-Organized Chemical and Biochemical
Systems: A Scientific Computing Approach, Habilitation Thesis, University of Heidelberg, 2006


Journal and Proceedings Papers, Book Chapters

Lebiedz, D. Covariant geometric characterization of slow invariant manifolds: New concepts and viewpoints.
(submitted, arXiv:1703.10785 [math.ds])

Heitel, M., Lebiedz, D. An online slow manifold approach for efficient optimal control
of multiple time-scale kinetics (submitted, arXiv:1703.08307 [math.OC])

Heiter, P., Lebiedz, D. Towards differential geometric characterization of slow invariant manifolds
in extended state space: Sectional Curvature and Flow Invariance. (submitted, arXiv:1612.01308 [math.DS])

Lebiedz, D., Unger, J. On unifying concepts for trajectory-based slow invariant attracting manifold computation
in kinetic multi-scale models. Math. Comp. Model. Dyn. 22, 87 (2016)

Lebiedz, D., Heiter, P., Unger. J. On conceptual ideas concerning slow invariant manifolds
in a variational problem viewpoint. Proceedings of the 5th IWMRRF, Cottbus, Germany (2015)

Lebiedz, D., Siehr, J. An optimization approach to kinetic model reduction for combustion chemistry.
Flow, Turbulence and Combustion, vol. 92(4), pp. 885 (2014)

Lebiedz, D., Rehberg, M. A numerical slow manifold approach to model reduction for optimal control
of multiple time scale ODE. arXiv:1302.1759 [math.OC](2013)

Dedner, A., Fein, M., Klöfkorn, R. Lebiedz., D. On the use of chemistry-based slow invariant
manifolds in DG methods for reactive flows, Preprint-Server Mathematics, University of Ulm (2013)

Kaese S, Everding S, Bohn A, Holz E, Lieder F, Baumgart P, Lebiedz D, Fischer D, Waltenberger J, Lebiedz P.
Efficacy, adverse events and outcome of pre-hospital systemic thrombolysis in out-of-hospital cardiac arrest.
European Heart Journal Supplements 1 (S2), 130 (2013)

Skanda, D., Lebiedz, D. A robust optimization approach to experimental design for model discrimination
of dynamical systems. Math. Prog. 141, 405-433 (2013)

Lebiedz, D., Unger, J. A Boundary Value View on the Reverse Trajectory-Based Optimization
Approach for Kinetic Model Reduction. Proceedings of 4th IWMRRF, San Francisco, USA (2013)

Lebiedz, D., Siehr, J. A continuation method for the efficient solution of parametric
optimization problems in kinetic model reduction. SIAM J. Sci. Comput. 35, A1584-A1603 (2013)

Stegmaier, J. Skanda, D., Lebiedz, D. Robust optimal design of experiments for model discrimination
using an interactive software tool. PloS One 8, e55723 (2013)

Lebiedz, D., Siehr, J. Simplified reaction models for combustion in gas turbine combustion chambers.
In Amsini Sadiki, Johannes Janicka, Michael Schäfer, and Christof Heeger, eds. Flow and Combustion
in Advanced Gas Turbine Combustors, Fluid Mechanics and its Applications, vol. 105, Chap. 5, Springer, Dortrecht (2013)

Kasenda, B., Rehberg, M., Thürmann P., Franzem, M., Veelken, H., Fritsch, K., Schorb, E., Finke, J.,
Lebiedz, D., Illerhaus, G. The prognostic value of serum methotrexate area under curve in elderly primary
CNS lymphoma patients. Ann Hematol. 2012 91, 1257 (2012)

Lebiedz, D., Rehberg, M., Skanda, D. Robust optimal design of synthetic biological networks.
Methods Mol Biol. 813, 45 (2012).

Dedner, A., Fein, M., Klöfkorn, R., Kröner, D., Lebiedz, D., Siehr, J., Unger, J. On the computation of
slow manifolds in chemical kinetics via optimization and their use as reduced models in reactive flow systems.
Proceedings of the 13th International Conference on Numerical Combustion (2011)

Lebiedz, D., Siehr, J. Unger, J. A Variational principle for computing slow invariant manifolds in dissipative
dynamical systems. SIAM J. Sci. Comput. 33, 703 (2011)

Engelhart, M., Lebiedz, D., Sager, S. Optimal control of selected chemotherapy ODE models:
A view on the potential of optimal schedules and choice of objective function. Math. Biosci. 229, 123 (2011),

Vladimirov, N., Sourjik, V., Lebiedz, D. Multiscale modeling of bacterial chemotaxis: Computer
simulations of chemotactic bacterium E. coli. From experiments to predictions. Lambert Academic Publishing, 2010

Lebiedz, D. Reinhardt, V., Siehr, J. Unger, J. Geometric criteria for model reduction in chemical kinetics
via optimization of trajectories. In "Coping with complexity: Model reduction and data analysis"',
Springer Series "Lecture Notes in Computational Science and Engineering". (2010)

Lebiedz, D., Reinhardt, V., Siehr, J. Minimal curvature trajectories: Riemannian geometry concepts
for slow manifold computation in chemical kinetics. J. Comput. Phys. 229, 6512 (2010)

Lebiedz, D. Entropy-related extremum principles for model reduction of dynamical systems.
Entropy 12, 706 (2010)

Skanda, D., Lebiedz, D. An optimal experimental design approach to model discrimination in dynamic
biochemical systems. Bioinformatics 26, 939 (2010)

Vladimirov, N., Lebiedz, D., Sourjik, V. Predicted auxiliary navigation mechanism of peritrichously flagellated
chemotactic bacteria. PloS Comput. Biol. 6, e1000717 (2010)

Kasenda, B., Rehberg, M., Franzem, M., Fritsch, K., Markert, A., Finke, J., Lebiedz, D., Illerhaus, G.
Mathematical Modeling in Optimizing Methotrexate-Based Chemotherapy. Blood 114, 4766 (2009)

Slaby, O., Lebiedz, D. Oscillatory NAD(P)H waves and calcium oscillations in neutrophils ? A modeling
study of feasibility. Biophys. J. 96, 417 (2009)

Mommer, M. S., Lebiedz, D. Modeling subdiffusion using reaction diffusion systems. SIAM J. Appl.
Math. 70, 112 (2009)

Hallett, M. B., Lebiedz, D., Mommer, M. S., Reble, C., Saltmarsh, E. J. Fantastic Ca(2+) "z-waves" fade out
quietly. Cell Calcium 46, 85 (2009)

Kasenda, B., Rehberg, M., Franzem, m., Fritsch, K., Markert, A., Finke, J. Haug, S., Lebiedz, D. Illerhaus, G.
Development of a semi-quantitative mathematical model to optimize methotrexate-based chemotherapy.
Onkologie 32, 113 (2009)

Løvdok, L., Bentele, K., Vladimirov, N., Müller, A., Pop, F. S., Lebiedz, D.,Kollmann, M., Sourjik, V. Role
of translational coupling in
robustness of bacterial chemotaxis pathway. PLoS Biology 7, e1000171 (2009)

Rehberg, M., Lebiedz, D. Phase tracking of circadian rhythm by model-based optimal control. Proceedings
of the Third International Conference on Foundations of Systems Biology in Engineering 2009 (Denver, CO, USA)

Inderwildi, O.R., Lebiedz, D., Warnatz, J. Quantum Chemical Simulations in Emission Control Catalysis, in
V.A. Basiuk and P. Ugliengo (eds.), "Quantum Chemical Simulations of Surfaces and Interfaces of Materials",
American Scientific Publishers (2008)

Reinhardt, V., Winckler, M., Lebiedz, D. Approximation of slow attracting manifolds in chemical kinetics
by trajectory-based optimization approaches. J. Phys. Chem. 112, 1712 (2008)

Shaik, O. S., Sager, S., Slaby, O., Lebiedz, D. Phase tracking and restoration of circadian rhythms by
model-based optimal control. IET Syst. Biol. 2, 16 (2008)

Schulmeister, S., Ruttorf, M., Thiem, S., Kentner, D., Lebiedz, D., Sourjik, V. Protein exchange dynamics
at chemoreceptor clusters in Escherichia coli. Proc. Natl. Acad. Sci. USA 29, 6403 (2008)

Lebiedz, D., Skanda, D., Fein, M. Automatic complexity analysis and model reduction of nonlinear
biochemical systems. In M. Heiner and A.M. Uhrmacher eds. "Computational Methods in Systems Bioloy",
Lecture Notes in Bioinformatics, pp. 123-140, Volume 5307, Springer (2008)

Vladimirov, N., Løvdok, L., Lebiedz, D., Sourjik, V. Dependence of chemotaxis on gradient shape and
adaptation rate. PloS Comput. Biol. 4: e1000242 (2008)

Reinhardt, V., Winckler, M., Warnatz, J., Lebiedz, D. Kinetic Mechanism Reduction by Trajectory-Based
Optimization Methods. Proceedings of the European Combustion Meeting (2007)

Sager, S., Brandt-Pollmann, U., Diehl, M., Lebiedz, D., Bock, H.G. Exploiting system homogeneities in
large scale optimal control problems for speedup of multiple shooting based SQP methods. Comput. Chem.
Engin. 31, 1181 (2007)

Reinhardt, V., Winckler, M., Warnatz, J., Lebiedz, D. Towards automatic reduction of kinetic mechanisms
by optimization of trajectories, 21st ICDERS (2007)

Slaby, O., Sager, S., Shaik, O. S., Kummer, U., Lebiedz, D. Optimal control of self-organized dynamics
in cellular signal transduction. Math. Comp. Model. Dyn. 13, 487 (2007)

Siehr, J., Mommer, M. S., Slaby, O., Lebiedz, D. Targeting characteristic wave properties in reaction
diffusion systems by optimization of external forcing. Phys Rev. E 76, 056211 (2007)


Lebiedz, D. Sager, S., Shaik, O. S., Slaby, O. Optimal control of self-organized dynamics in cellular
signal transduction. Proceedings of the 5th Vienna Symposium of Mathematical Modeling, Vienna, 2006,
Argesim Rep. 30 (2006)

Volpp, H.-R., Starukhin, D., Ciossu, L., Inderwildi, O.R., Lebiedz, D., Warnatz, J. Reaction Processes
on Catalytically Active Surfaces. In Jäger et al. (eds.) "Reactive Flows, Diffusion and Transport",
Springer (2006)

Lebiedz, D., Reinhardt, V. Kammerer, J. Novel trajectory based concepts for model and complexity
reduction in (bio)chemical kinetics. In Gorban et al. (eds.) „Model reduction and coarse-graining
approaches for multi-scale phenomena“, Springer (2006)


Inderwildi, O.R., Lebiedz, D., Deutschmann, O., Warnatz, J. Coverage dependence of oxygen
decomposition and surface diffusion on Rhodium(111): a DFT study. J. Chem. Phys. 122, 034710 (2005)

Zobeley, J., Lebiedz, D., Kammerer, J., Ishmurzin, A., Kummer, U. A new time-dependent
complexity reduction method for biochemical systems. Trans. Comput. Syst. Biol. 1, 90 (2005)

Inderwildi, O.R., Lebiedz, D., Deutschmann, O., Warnatz, J. Influence of initial oxygen coverage and
magnetic moment on the NO decomposition on Rhodium(111). J. Chem. Phys. 122, 15470 (2005)

Lebiedz, D., Brandt-Pollmann, U. Specific external forcing of spatiotemporal dynamics in reaction
diffusion systems. Chaos 15, 023901 (2005), selected for online-publication in Virtual Journal of
Biological Physics Research, April 15, 2005

Inderwildi, O.R., Lebiedz, D., Warnatz, J. Linear relationships between activation energies
and reaction energies for coverage-dependent dissociation reactions on Rhodium surfaces.
Phys. Chem. Chem. Phys. 7, 2552 (2005)

Brandt-Pollmann, U., Lebiedz, D., Diehl, M., Sager, S., Schlöder, J.P. Real-time nonlinear feedback
control of pattern formation in (bio)chemical reaction-diffusion processes: a model study. Chaos 15,
033901 (2005), selected for online-publication in Virtual Journal of Biological Physics Research, July 15, 2005

Reinhardt, V., Schramm, B., Lebiedz, D., Warnatz, J. ILDM Reduced Chemistry Tailored For
Large Scale Reaction Mechanisms in Complex Reactive Flow Applications, 20th ICDERS (2005)

Lebiedz, D., Sager, S., Bock, H.G., Lebiedz, P. Annihilation of limit cycle oscillations by identification
of critical perturbing stimuli via mixed-integer optimal control. Phys. Rev. Lett. 95, 108303 (2005),
selected for online-publication in Virtual Journal of Biological Physics Research, July 15, 2005

Lebiedz, D., Kammerer, J., Brandt-Pollmann, U. Automatic network coupling analysis for
dynamical systems based on detailed kinetic models. Phys. Rev. E 72, 041911 (2005),
selected for online-publication in Virtual Journal of Biological Physics Research, October 15, 2005

Lebiedz, D. Exploiting optimal control for target-oriented manipulation of (bio)chemical systems: a
model-based approach to specific modification of self-organized dynamics. Int. J. Mod. Phys. B 19, 3763 (2005)

Inderwildi, O.R., Lebiedz, D., Deutschmann, O., Warnatz, J. Influence of coadsorbants on the NO
dissociation on a Rhodium(311) surface. ChemPhysChem 6, 2513 (2005)

Shaik, O.S., Kammerer, J., Gorecki, J., Lebiedz, D. Derivation of a quantitative minimal model
from a detailed elementary-step mechanism supported by mathematical coupling analysis.
J. Chem. Phys. 123, 324103 (2005), selected for online-publication in Virtual Journal of Biological Physics
Research, January 1, 2006

Su, Q., Inderwildi, O.R., Deutschmann, O, Warnatz, J., Lebiedz, D. A transient modeling and simulation study
of catalytic decomposition of NOx over Rhodium. JSAE Technical paper 20056117-115 (2005)


Lebiedz, D. Computing minimal entropy production trajectories - an approach to model reduction in
chemical kinetics. J. Chem. Phys. 120, 6890 (2004)

Lebiedz, D., Züchner, H., Gutfleisch, O. Hydrogen effects in alloys of type Nd2(Fe/Co)14B studied by
X-ray photoelectron spectroscopy. Chem. Mater. 16, 3098 (2004)

Lebiedz, D., Brandt-Pollmann, U. Dynamic control and information processing in chemical reaction systems
by tuning self-organization behaviour. Chaos 14, 611 (2004), selected for online-publication in Virtual
Journal of Biological Physics Research, Sept. 1, 2004

Lebiedz, D., Brandt-Pollmann, U. Manipulation of surface reaction dynamics by global pressure and
local temperature control: a model study. Phys. Rev. E 70, 051609 (2004)

Lebiedz, D., Maurer, H. External optimal control of self-organization dynamics in a chemotaxis
reaction diffusion system. Syst. Biol. (Stevenage) 1, 222 (2004)

Lebiedz, D., Züchner, H., Gutfleisch,O. A Secondary ion mass spectrometry study of hydrogen interaction
with Nd2(Fe/Co)14B. J. Alloy Compd 356-357, 679 (2003)

Schramm, B., Ishmurzin, A., Lebiedz, D., Warnatz, J. ILDM description of the combustion of large
hydrocarbons. 21. Deutscher Flammentag, VDI-Berichte 1750, 675 (2003)

Ishmurzin, A., Schramm, B., Lebiedz, D., Warnatz, J. ILDM description of the combustion of large
hydrocarbons. Proceedings of the European Combustion Meeting, Orleans (2003)

Lebiedz, D., Brandt-Pollmann, U. Manipulation of self aggregation patterns and waves in a
reaction-diffusion-system by optimal boundary control strategies. Phys. Rev. Lett. 91, 208301 (2003),
selected for online-publication in Virtual Journal of Biological Physics Research, Nov. 15, 2003

Kestenbaum, H., Lange de Oliveira, A., Schmidt, W., Schüth,F., Ehrfeld, W., Gebauer, K., Löwe, H.,
Richter, T., Lebiedz, D., Untiedt, I., Züchner, H. Silver catalysed oxidation of ethylene to ethylene oxide in
a microreaction system. Ind. Eng. Chem. Res. 41, 710 (2002)


Diploma, Master, Bachelor and PhD Theses:

Dissertation O. Inderwildi, Universität Heidelberg, 2005, Multi-Scale Modeling for Exhaust-Gas Aftertreatment
- From the Quantum Chemistry to the Engineering Level -pdf -

Diplom O. Slaby, Universität Heidelberg, 2005, Einsatz numerischer Verfahren zur Modellierung und optimalen Steuerung
metabolischer Oszillationen und Wellen in Zellen des Immunsystems - pdf -

Diplom M. Winckler, Universität Heidelberg, 2007, Towards Optimal Criteria for Trajectory-Based Model Reduction in
Chemical Kinetics via Numerical Optimization - pdf -

Diplom J. Siehr, Universität Heidelberg, 2007, Targeting specific properties of reaction diffusion waves by numerical
optimization of external forcing parameters - pdf -

Dissertation J. Kammerer, Universität Heidelberg, 2007, Numerische Verfahren zur dynamischen Komplexitätsreduktion
biochemischer Reaktionssysteme - pdf -

Diplom C. Reble, Universität Heidelberg, 2007, Experimental and Theoretical Investigations of Dissipative
Structures in Living Human Immune Cells - pdf -

Dissertation O.S. Shaik, Universität Heidelberg, 2008, Model-Based External Forcing of Nonlinear Dynamics in
Chemical and Biochemical Reaction Systems via Optimal Control - pdf -

Dissertation O. Slaby, Universität Heidelberg, 2008, Einsatz von Methoden des Wissenschaftlichen Rechnens zur
Untersuchung dissipativer Strukturen in Immunzellen - pdf -

Dissertation V. Reinhardt, Universität Heidelberg, 2008, On the Application of Trajectory-Based Optimization for Nonlinear
Kinetic Model Reduction - pdf -

Dissertation N. Vladimirov, University of Heidelberg, 2009, Multi-scale modeling of bacterial chemotaxis - pdf -

Diplom M. Franzem, University of Augsburg, 2009, Datenbasierte dynamische Modellierung einer Krebs-Chemotherapie
von Non-Hodgkin ZNS-Lymphomen - pdf -

Diplom J. Unger, University of Freiburg, 2010, On the analysis of an Optimization Approach to Slow Manifold
Computation in Chemical Kinetics - pdf -

Diplom M. Esenwein, University of Freiburg, 2011, On the implementation of a direct numerical method for optimal
control of ordinary differential equations - pdf -

Diplom A. Bisaliev, University of Freiburg, 2011, Equilibrium computation for 2-player extensive games
with simultaneous moves - pdf -

MSc J. Stegmaier, University of Freiburg, 2011, Robust optimal design of experiments: Development and application
of a graphical user interface - pdf -

BSc A. Erbach, University of Ulm 2012, The mammalian circadian clock: an application for numerical optimal control. - pdf -

Dissertation S. Skanda, University of Freiburg 2012, Robust optimal experimental design for model discrimination of
kinetic ODE systems. - pdf -

MSc P. Heiter, University of Ulm 2012, On numerical methods for stiff ordinary differential equation systems. - pdf

Dissertation J. Siehr, University of Heidelberg 2013, Numerical optimization methods within a continuation
strategy for the reduction of chemical combustion models. - pdf -

Dissertation M. Rehberg, University of Ulm 2013, A Numerical Approach to Model Reduction for Optimal Control
of Multiscale ODE. - pdf -

Dissertation M.D. Fein, University of Ulm 2013, On the Use of Numerical Model Reduction Techniques in Chemically
Reacting Flows. - pdf -

BSc J. Gabriel, University of Ulm 2015, Modellierung und Simulation einer nicht-vorgemischten
Gleichstrom-Wasserstoff-Verbrennung - pdf -

BSc J. Dietrich, University of Ulm 2015, Trajectory Based Model Reduction of Dynamical Systems
using Methods of Optimal Control. - pdf -

BSc C. Fitzer, University of Ulm 2015, Topologieoptimierung von Bauteilen bei Metallgussprozessen
in Bezug auf Fliessdynamik und Strömungsgeschwindigkeiten

MSc C. Winter-Emden, University of Ulm 2015, Mathematische Modellierung und Fehleranalyse eines
Patientenpositionier-Roboters

MSc M. Heitel, University of Ulm 2015, Comparison of Numerical Optimization Techniques for
a Variational Problem Formulation of Manifold-Based Model Reduction

Dissertation J. Unger, University of Ulm 2016, On fundamental concepts for model reduction
in multiscale combustion models. - pdf -

BSc M. Kreuzer, University of Ulm 2016, Flexible Energy Balance Climate Models for Teaching and Research - pdf -

ZuLa Lehramt M. Brüche, University of Ulm 2016, Numerische Simulation und Analyse von
Reaktions-Diffusionssystemen zur Untersuchung von Strukturbildungsphänomenen des H2O2 NaOHSCN Cu2+ Oszillators
- pdf -