Publikationen von Prof. Johannes Müller


Volker Hösel, Christina Kutter, Johannes Müller
Mathematical Population Genetics and Evolution of Bacterial Cooperation
World Scientific Press, 2020

K.P.Hadeler, J. Müller
Cellular Automata - theory and applications
Monographie Springer, 2017.

J. Müller, Ch. Kuttler.
Methods and Models in Mathematical Biology. Springer, 2015.

G. de Vries, Th. Hillen, M. Lewis, B. Schönfisch, J. Müller.
A short course in Mathematical Biology. SIAM, 2006.



Johannes Müller, Mirjam Kretzschmar
Contact Tracing – Old Models and New Challenges (Review paper)
Infectious Disease Modelling, 6 (2021), 222-231
doi: 10.1016/j.idm.2020.12.005


Augustine Okolie, Johannes Müller
Exact and approximate formulas for contact tracing on random trees.
Math. Biosc., Math. Biosc., 321 (2020): 108320.
doi: 10.1016/j.mbs.2020.108320

Stefanie Spriewald, Eva Stadler, Burkhard A. Hense, Philipp C. Münch, Alice C. McHardy, Anna S. Weiss, Nancy Obeng, Johannes Müller, Bärbel Stecher
Evolutionary Stabilization of Cooperative Toxin Production
through a Bacterium-Plasmid-Phage Interplay
mBio  11:e00912-20 DOI: 10.1128/mBio.00912-20.

Stadler E., Müller, J.
Analyzing plasmid segregation: Existence and stability of the eigensolutions in a non-compact case.
Discrete Contin. Dyn. Syst. Ser. B., 25(2020), 4127-4164.
doi: 10.3934/dcdsb.2020091


Thibaut Sellinger, Johannes Müller∗, Volker Hösel, Aurelien Tellier
Are the better cooperators dormant or quiescent?
Math. Biosc., 2019, 108272. Preprint.
doi: 10.1016/j.mbs.2019.108272

Müller J, Spriewald S, Stecher B, Stadler E, and Fuchs, TM
Evolutionary Stability of Salmonella Combat with the Gut Microbiota: How the Environment Fosters Heterogeneity in Exploitative and Interference Competition
J Mol Biol. 2019 Jun 28. pii: S0022-2836(19)30416-4.
doi: 10.1016/j.jmb.2019.06.027

Karin Münch, Richard Münch, Rebekka Biedendieck, Dieter Jahn, Johannes Müller
Evolutionary model for the unequal segregation of high copy plasmids.
PLoS Comp. Biol. 15: e1006724, 2019
DOI: 10.1371/journal.pcbi.1006724

Michael Meehan, Daniel G Cocks, Johannes Müller, Emma S. McBryde
Global stability properties of renewal epidemic models
J. Math. Biol., published online, 2019
DOI: 10.1007/s00285-018-01324-1

V. Hösel, J. Müller, A. Tellier
Universality of neutral models: Decision process in politics.
Palgrave Communications 5 (2019) 1-8
DOI: 10.1057/s41599-019-02


Lukas Heinrich, Johannes Müller*, Aurélien Tellier, Daniel Živković
Effects of population- and seed bank size fluctuations on neutral evolution and efficacy of natural selection
JTB 123 (2018) 45-69
DOI: 10.1016/j.tpb.2018.05.003


Dominic Kohler, Johannes Müller, Birgit Obst, Utz Wever
Efficient simulation of threshold behavior
Artificial Intelligence for Engineering Design, Analysis and Manufacturing 31(2017): 173–184. doi:10.1017/S0890060417000063


Johannes Müller, Bendix Koopmann, Autelien Tellier, Daniel Zivkovic,
 Fisher-Wright model with deterministic seed bank and selection.
Theor. Pop. Biol. 114, (2017): 29–39
doi: 10.1016/j.tpb.2016.11.005

Aaron Mischa Nuss, Franziska Schuster, Louisa Roselius, Johannes Klein, René Bücker, Katharina Herbst, Ann Kathrin Heroven, Fabio Pisano, Christoph Wittmann, Richard Münch, Johannes Müller, Dieter Jahn, and Petra Dersch,
A precise temperature-responsive bistable switch controlling Yersinia virulence.
PLoS Pathog 2016, 12(12): e1006091

J. Müller, B. Koopmann,
The effect of delay on contact tracing
Math. Biosc. 282(204-214), 2016.


D. Kohler, J. Müller, U. Wever
Cellular Non-Deterministic Automata and Partial Differential Equations
Physica D 311–312 (2015) 1–16
DOI: 10.1016/j.physd.2015.08.001

Karin M Münch, Johannes Müller, Sarah Wienecke, Simone Bergmann, Steffi Heyber, Rebekka Biedendieck, Richard Münch, Dieter Jahn
Polar fixation of plasmids during recombinant protein production in Bacillus megaterium results in population heterogeneity.
Applied and Environmental Microbiology 06/2015; DOI:10.1128/AEM.00807-15

Cui H., Hense B., Müller J. and Schröder P.
Short term uptake and transport process for Metformin in roots of Phragmites australis and Typha latifolia
Chemosphere,  2015 Sep;134:307-12

Dominic Kohler, Youssef M. Marzouk, Johannes Müller and Utz Wever
A new network approach to Bayesian inference in partial differential equations.
Journal for Numerical Methods in Engineering, accepted 2015

Faidra Stavropoulou, Johannes Müller
Parametrization of random vectors in polynomial chaos expansions via optimal transportation
SIAM Journal on Scientific Computing, accepted, 2015

Johannes Müller, Hengrui Jiang
Graphical Limit Sets for General Cellular Automata
Theoretical Computer Science,  580 (2015) 14–27
DOI: 10.1016/j.tcs.2015.02.022

B.A. Hense, Ch. Kuttler, J. Müller
Functionality of autoinducer systems in complex environments
Chapter 5
Hagen, Stephen J (Edit), The Physical Basis of Bacterial Quorum Communication,
Springer, 2015


Meltem Gölgeli Matur, Johannes Müller, Christina Kuttler, Burkhard A Hense
An Approximative Approach for Single Cell Spatial Modeling of Quorum Sensing.
Journal of computational biology 10/2014;
DOI: 10.1089/cmb.2014.0198

Louisa Roselius, Dirk Langemann, Johannes Müller,  Burkhard Hense, Stefan Filges, Dieter Jahn,  Richard Muench
Modeling and analysis of a gene-regulatory feed-forward loop with basal expression of the second regulator
Journal of Theoretical Biology 363(290-299), 2014
doi: 10.1016/j.jtbi.2014.08.043

J. Müller and B.A. Hense and S. Marozava and Ch. Kuttler and R.U. Meckenstock
Model selection for microbial nutrient uptake using a cost-benefit approach
Mathematical Biosciences 255(52-70), 2014
DOI: 10.1016/j.mbs.2014.06.012

Grote, J., Krysciak, D., Schorn, A., Dahlke, R.I., Soonvald, L., Müller, J., Hense, B.A., Schwarzfischer, M., Sauter, M., Schmeisser, C., Streit, W.R.
Evidence of autoinducer-dependent and autoinducer-independent heterogeneous gene expression in Sinorhizobium fredii NGR234.
Appl. Environ. Microbiol., (2014)
DOI: 10.1128/AEM.01689-14

Uecker, Hannes and Müller, Johannes and Hense, Burkhard
Individual-Based Model for Quorum Sensing with Background Flow
Bulletin of Mathematical Biology 76(1727-1746), 2014
DOI: 10.1007/s11538-014-9974-2


Dominic Kohler, Johannes Müller, and Utz Wever
Cellular Probabilistic Automata - A Novel Method for Uncertainty Propagation
DOI. 10.1137/120897183

Onyango, Nelson Owuor and  Müller, Johannes and Moindi, Stephen Kibet
Optimal Vaccination Strategies in an SIR epidemic model with time scales.
SCIRP Applied Mathematics 4 (2013), 1-14
DOI: 10.4236/am.2013.410A2001

Johannes Müller; Burkhard Hense; Thilo Fuchs; Margarete Utz; Christian Pötzsche
Bet-hedging in stochastically switching environments
Journal of Theoretical Biology, 336(2013), 144-157
DOI 10.1016/j.jtbi.2013.07.017

Stephan Dräxl, Johannes Müller, Weibo Li, Bernhard Michalke, Hagen Scherb,
Burkhard A. Hense, Jochen Tschiersch, Ulrike Kanter, Anton R. Schäffner
Caesium accumulation in yeast and plants is selectively repressed by loss of the SNARE Sec22p/SEC22
Nature Communications,  4:2092 (2013), DOI: 10.1038/ncomms3092

Onyango, Nelson Owuour, Johannes Müller
Determination of optimal vaccination strategies using an orbital stability threshold from periodically driven systems
J. Math. Biol.,  p. 3-24
DOI 10.1007/s00285-013-0648-8

Marita Falkinge, Stefan Schell, Johannes Müller, Jan J. Wilkins
Prioritized optimization in intensity modulated proton therapy.
Z. Med. Phys. 22 (2012) 21–28

Andrea Meyer, Judith A Megerle, Christina Kuttler, Johannes Müller,Claudio Aguilar, 
Leo Eberl, Burkhard A Hense, Joachim O. Rädler
Dynamics of AHL mediated quorum sensing under flow and non-flow conditions
Phys. Biol. 9 (2012) 026007 (10pp)

Annett Henkel, Johannes Müller, Christian Poetzsche
Modeling the spread of Phytophthora 
Journal of Mathematical Biology: Volume 65, Issue 6 (2012), Page 1359-1385

Johannes Müller, Hannes Uecker,
Approximating the dynamics of communicating cells in a diffusive medium by ODEs—homogenization with localization
Journal of Mathematical Biology: Volume 65,
DOI 10.1007/s00285-012-0569-y, p.1-45

Faidra Stravropoulou, Johannes Müller
A polynomial chaos based Bayesian approach for on-line parameter
estimation and control.
Proceeding of 2011 IEEE International Conference on Computer-Aided Control System Design (CACSD), 
28.-30. Sep 2011, Denver, CO. 1391 - 1396 (2011)

Agnes Fekete, Christina Kuttler, Michael Rothballer, Burkhard A. Hense, Doreen Fischer, 
Katharina Buddrus-Schiemann, Marianna Lucio, Johannes Müller, Philippe Schmitt-Kopplin, Anton Hartmann
Dynamic regulation of N-acyl-homoserine lactone production and degradation in Pseudomonas putida IsoF,
FEMS Microbiol Ecol 72 (2010) 22–34

M. Falkinger, S. Schell, J. Müller, J.J. Wilkens
Sequentielle Optimierung für die intensitätsmodulierte Protonentherapie
Hodapp N., J. Hennig, M. Mix (eds.)
Medizinische Physik 2010 (Deutsche Gesellschaft für Medizinische Physik: Freiburg), 78-81, 2010

M. Frederick, Ch. Kuttler, B.A. Hense, J.Müller and H.J. Eberl
A mathematical model of quorum sensing in patchy biofilm communities with slow background flow
Can. Appl. Math. Quart. 18(3), 2010, 267-298

Johannes Müller, Christoph Spandl
Embeddings of dynamical systems into cellular automata,
Ergod. Th. & Dynam. Sys. (2009), 29, 165–177
Erratum: Ergod. Th. & Dynam. Sys. (2010) 30:1271 - 1271. 

Johannes Müller, Christoph Spandl
A Curtis–Hedlund–Lyndon theorem for Besicovitch and Weyl spaces
Theoretical Computer Science 410 (2009) 3606–3615

Stefan Zeiser, Uwe Franz, Johannes Müller, Volkmar Liebscher
Hybrid Modeling of Noise Reduction by a Negatively Autoregulated System
Bulletin of Mathematical Biology (2009) 71: 1006–1024

Messoud Efendiev, Johnnes Müller
Clasification of existence and non-existence of running fronts in case of fast diffusion,
Adv. Math. Sci. Appl. 19, 285-293 (2009)

J. Müller, S. Brandt, K. Mayerhofer, Th. Tjardes, M. Maegele
Tolerance and threshold in the extrinsic coagulation system.
Math. Biosc., 211 226-254 (2008).

Th. Stolte, V. Hösel, J. Müller, M. Speicher
Modelling  Clonal Expansion from M-FISH Experiments.
J. Comp. Biol., 15, 221-230, 2008.

J. Müller, Ch. Kuttler, B.A. Hense.  
Sensitivity of the Quorum Sensing system is achieved by low pass filtering. 
BioSystems 92, 76-81 (2008).

B.A. Hense, Ch. Kuttler, J. Müller, M. Rothballer, A. Hartmann, J.-A. Kreft 
Efficiency Sensing – was messen Autoinduktoren wirklich?
Biospektrum (2008), 01.08 (18-21)

Johannes Müller, Stefan Brandt, Katrin Mayerhofer, Thorsten Tjardes, Marc Maegele
Tolerance and threshold in the extrinsic coagulation system,
Mathematical Biosciences 211 (2008) 226–254

Johannes Müller, Christina Kuttler, Burkhard A. Hense
Sensitivity of the quorum sensing system is achieved by low pass filtering
BioSystems 92 (2008) 76–81

Johannes Müller, Christina Kuttler, Burkhard A. Hense, Stefan Zeiser, Volkmar Liebscher
Transcription, intercellular variability and correlated random walk,
Mathematical Biosciences 216 (2008) 30–39

J. Müller, Ch. Spandel.
Embedding of dynamical systems into cellular automata.
Ergodic Theory and Dynamical Systems, 29, 165-177, 2008
DOI 10.1017/S0143385708080036
Erratum: Ergodic Theory and Dynamical Systems, 30, 1271-1271, 2010

K.P. Hadeler, J. Müller. 
Optimal harvesting and optimal vaccination. 
Math. Biosc.,  206, 249-272, 2007.

B.A. Hense, Ch. Kuttler, J. Müller, M. Rothballer, A. Hartmann, J.-U. Kreft. 
Does efficiency sensing unify diffusion and quorum sensing? 
Nat. Rev. Microbiol. 5, 230-239 (2007)

J. Müller, V. Hösel
Estimating the tracing probability from contact history at the onset of the diseases.
Mathematical Population Studies, 14, 211-236 (2007)
doi: 10.1080/08898480701612857

S. Zeiser, J. Müller, V. Liebscher
Modelling the HES1 Oscillator.
Comp. Biol. 14(7): 984-1000 (2007).

J. Müller, C. Kuttler, B.A. Hense, M. Rothballer, A. Hartmann. 
Cell-cell communication by quorum sensing and dimension-reduction. 
J. Math. Biol. 53, 672-702 (2006)

J.Müller, K.P.Hadeler, V.Müller, J.Waldmann, F.M.Landsdorfer, R.Wisniewski, J.Kanz, F.Lang. 
Influence of low power cm/mm-microwaves on cardiovascular function. 
Int J Environ Health Res. 2004 Oct;14(5):331-41. 

A. Mertz, M. Guttenberger, J. Müller, Birgitt Schönfisch, R. Hampp 
Isozyme Variability in Brazilian Populations of Araucaria angustifolia 
Biociencias 11:3-8 (2003). 
J. Müller, M. Möhle 
Family trees for time continous birth death processes 
J. Appl. Prob. 40:980-994 (2003) 
J. Müller, Th. Tjardes 
Modelling the cytokine network in vitro and in vivo 
J. Theor. Med.  5:93-110 (2003)

R.E.M. Toes, A.K. Nussbaum, M. Schirle, S. Degemann, M. Schirle, 
N.P.N. Emmerich, M. Kraft, C. Laplace, A. Zwinderman, T.P. Dick, 
J. Müller, B. Schönfisch, C. Schmid, H.-J. Fehling, 
S. Stevanovic, H.-G. Rammensee and H. Schild. 
Discrete cleavage motifs of constitutive and immunoproteasomes 
revealed by quantitative analysis of cleavage products. 
J. Exp. Med., 194:1-12, 2001.

G. Schneider and J. Müller. 
Bifurcation analysis for a spatially extended random walk system in  mathematical biology. 
Comm. Appl. Anal., 5:247-264, 2001. 

J. Müller. 
Optimal vaccination strategies for age structured populations: Endemic case. 
Math. Comp. Model., 31:149-160, 2000.

J. Müller and K.P. Hadeler. 
Monotonicity of the number of passages in, linear chains and of the 
basic reproduction number in epidemic models. 
Zeit. Anal. Anwend., 19:61-75, 2000

J. Müller, M. Kretzschmar, and K. Dietz. 
Contact tracing in deterministic and stochastic models. 
Math. Biosc., 164:39-64, 2000.

J. Müller, B. Schönfisch, and M. Kirkilionis. 
Ring vaccination. 
J. Math. Biol., 41:143-171 2000.

J. Müller. 
Optimal vaccination strategies for age structured populations. 
SIAM J. Appl. Math., 59:222-241, 1999.

J. Müller. 
Scaling methods and approximative equations for homogeneous 
 reaction--diffusion systems and applications to epidemics. 
J. Nonlin. Sci., 9:149-168, 1999.

K.P. Hadeler and J. Müller. 
Dynamical systems of population dynamics. 
In: B. Fielder, editor, 
Ergodic Theory, Analysis and Efficient Simulation of Dynamical Systems, 
pages 311-332, Springer, 1999.

K.P. Hadeler and J.Müller 
The effects of vaccination on sexually transmitted disease in heterosexual populations. 
In O.Arino, D.Axelrod, and M.Kimmel, editors, 
Proc. 3rd Internat. Conf. on Mathematical Population Dynamics, Pau(France), 
pages 251-278. Wuerz Puiblisher Ltd, Winnipeg, 1993.

K.P. Hadeler and J.Müller. 
Vaccination in age-structured populationsI: The reproduction number. 
In V.Isham and G.Medley, editors, 
Models for Infectious Human Diseases: Their Structure and Relation to Data, 
pages 90-101. Cambridge University Press, 1993.

K.P. Hadeler and J.Müller. 
Vaccination in age-structured populations II: Optimal vaccination strategies. 
In V. Isham and G. Medley, editors, 
Models for Infectious Human Diseases: Their Structure and Relation to Data, 
pages 102-114. Cambridge University Press, 1993.

J. Müller. 
Optimal vaccination strategies - for whom? 
Math. Biosc., 139:133-154, 1997.

J. Müller and T. Hillen. 
Modulation equations and the parabolic limit of reaction random walk equations. 
Math. Meth. Appl. Sci., 21:1207-1226, 1998.


J. Müller. 
Optimal vaccination patterns in age structured populations. 
Dissertation, Fakultät für Mathematik, Tübingen, 1994.

J. Müller. 
The Mathematics of Infection. 
Habilitation theses, Tübingen, 2000

Non-refereed publications

Johannes Müller, Mirjam Kretzschmar
Backward tracing and forward thinking
Accepted by Nature Physics, 2021.

Tina R Pollmann, Julia Pollmann, Christoph Wiesinger, Christian Haack, Lolian Shtembari, Andrea Turcati, Birgit Neumair, Stephan Meighen-Berger, Giovanni Zattera, Matthias Neumair, Uljana Apel, Augustine Okolie, Johannes Mueller, Stefan Schoenert, Elisa Resconi
The impact of digital contact tracing on the SARS-CoV-2 pandemic - a comprehensive modelling study
2020, medRxiv doi:

J. Kanz, J. Waldmann, F.M. Landstorfer, F.Lang, J.Müller, K.P. Hadeler 
Einfluß von hohen GHz-Signalen auf das Vegetative Nervensystem.
Forschungsgemeinschaft Funk e.V., Newsletter 11: 22-25, 2003.

Kompartementmodelle im PET.
In: G. Winkler, editor, Beiträge zur Biomedizinischen Bildgebung mit einem Seitenblick auf Molecular Imaging. GSF-Bericht 03/04
pages 209-256, GSF-Forschungszentrum, Munich, 2004.

J. Müller
Contact tracing and stochastic trees.
Oberwolfach Reports, 2004.

Johannes Müller, Mirjam Kretzschmar
Disease Burden.
Oberwolfach Reports, 2017.
DOI: 10.4171/OWR/2018/7