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Modelling and Simulation

Working Group 8.41

Publications 8.43

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2023

•
B. Winkler, C. Nagel, N. Farchmin, S. Heidenreich, A. Loewe, O. Dössel and M. Bär
Global Sensitivity Analysis and Uncertainty Quantification for Simulated Atrial Electrocardiograms.
Metrology, 3(1),
1-28,
2023.
[DOI: https://doi.org/10.3390/metrology3010001]
•
N. Hegemann and S. Heidenreich
PyThia: A Python package for Uncertainty Quantification based on non-intrusive polynomial chaos expansions.
Journal of Open Source Software, 8(89),
5489,
2023.
[DOI: https://doi.org/10.21105/joss.05489]
•
K. Gillette, M. A. F. Gsell, C. Nagel, J. Bender, B. Winkler, S. E. Williams, M. Bär, T. Schäffter, O. Dössel, G. Plank and A. Loewe
MedalCare-XL: 16,900 healthy and pathological synthetic 12 lead ECGs from electrophysiological simulations.
Scientific Data, 10(531 (2023)),
2023.
[DOI: https://doi.org/10.1038/s41597-023-02416-4]
•
M. Eigel, N. Farchmin, S. Heidenreich and P. Trunschke
Adaptive Nonintrusive Reconstruction of Solutions to High-Dimensional Parametric PDEs.
Methods and Algorithms for Scientific Computing, 45(2),
A457-A479,
2023.
[DOI: https://doi.org/10.1137/21M1461988]

2022

•
V. M. Worlitzer
Collective motion and clustering in active polar fluids.
PhD Thesis
2022.
[DOI: http://dx.doi.org/10.14279/depositonce-16056]
•
V. M. Worlitzer, A. Jose, I. Grinberg, M. Bär, S. Heidenreich, A. Eldar, G. Ariel and A. Be´er
Biophysical aspects underlying the swarm to biofilm transition.
Science Advances, 8(24),
2022.
[DOI: DOI: 10.1126/sciadv.abn8152]
•
N. Farchmin
Adaptive and non-intrusive uncertainty quantification for high-dimensional parametric partial differential equations.
PhD Thesis
2022.
[DOI: http://dx.doi.org/10.14279/depositonce-15530]
•
C. Herr, B. Winkler, F. Ziebert, I. S. Aranson, J. T. Fourkas and W. Losert
Spontaneous polarization and cell guidance on asymmetric nanotopography.
Communications Physics, 5(114),
2022.
[DOI: https://doi.org/10.1038/s42005-022-00889-0]
•
H. Reinken, S. Heidenreich, M. Bär and S. Klapp
Ising-like critical behavior of vortex lattices in an active fluid.
Physical Review Letters, 128(4),
048004,
2022.
[DOI: 10.1103/PhysRevLett.128.048004]

2021

•
M. Wilczek, S. Heidenreich and M. Bär
Die Physik aktiver Fluide.
Physik Journal, 20(12),
35,
2021.
•
V. M. Worlitzer, G. Ariel, A. Be'er, H. Stark, M. Bär and S. Heidenreich
Turbulence-induced clustering in compressible active fluids.
Soft Matter, 2021(17),
10447-10457,
2021.
[DOI: https://doi.org/10.1039/D1SM01276B]
•
A. Andrle, N. Farchmin, P. Hagemann, S. Heidenreich, V. Soltwisch and G. Steidl
Invertible Neural Networks Versus MCMC for Posterior Reconstruction in Grazing Incidence X-Ray Fluorescence.
Scale Space and Variational Methods in Computer Vision,
528--539,
2021.
[DOI: 10.1007/978-3-030-75549-2_42]
•
S. Peled, S. D. Ryan, S. Heidenreich, M. Bär, G. Ariel and A. Be'er
Heterogeneous bacterial swarms with mixed lengths.
Physical Review E, 103(3),
032413,
2021.
[DOI: 10.1103/PhysRevE.103.032413]
•
A. Andrle, P. Hönicke, J. Vinson, R. Quintanilha, Q. Saadeh, S. Heidenreich, F. Scholze and V. Soltwisch
The anisotropy in the optical constants of quartz crystals for soft X-rays.
Journal of Applied Crystallography, 54(2),
402--408,
2021.
[DOI: 10.1107/S1600576720016325]
•
M. Eigel, N. Farchmin, S. Heidenreich and P. Trunschke
Efficient approximation of high-dimensional exponentials by tensornetworks.
International Journal of Uncertainty Quantification,
25-51,
2021.
[DOI: 10.1615/Int.J.UncertaintyQuantification.2022039164]

2020

•
H. Reinken, D. Nishiguchi, S. Heidenreich, A. Sokolov, M. Bär, S. H. L. Klapp and I. S. Aranson
Organizing bacterial vortex lattices by periodic obstacle arrays.
Commun Phys, 3(76),
2020.
[DOI: 10.1038/s42005-020-0337-z]
•
N. Farchmin, M. Hammerschmidt, P. I. Schneider, M. Wurm, B. Bodermann, M. Bär and S. Heidenreich
Efficient Bayesian inversion for shape reconstruction of lithography masks.
Journal of Micro/Nanolithography, MEMS, and MOEMS, 2(19),
1--11,
2020.
[DOI: 10.1117/1.JMM.19.2.024001]
•
M. Casfor Zapata, N. Farchmin, M. Pflüger, K. Nikolaev, V. Soltwisch, S. Heidenreich, C. Laube, M. Kolbe and F. Scholze
Sensitivity analysis for the detection of pitchwalk in self- aligned quadruple patterning by GISAXS.
Proc. of SPIE Volume 11325
Publisher: SPIE,
2020.
[DOI: 10.1117/12.2552037]

2019

•
H. Reinken, S. Heidenreich, M. Bär and S. H. L. Klapp
Anisotropic mesoscale turbulence and pattern formation in microswimmer suspensions induced by orienting external fields.
New Journal of Physics, 21(1),
013037,
2019.
[DOI: 10.1088%2F1367-2630%2Faaff09]

2018

•
S. Heidenreich, H. Gross and M. Bär
Bayesian approach to determine critical dimensions from scatterometric measurements.
Metrologia, 55(6),
201,
2018.
[DOI: 10.1088/1681-7575/aae41c]
•
G. Ariel, M. Sidortsov, S. D. Ryan, S. Heidenreich, M. Bär and A. Be'er
Collective dynamics of two-dimensional swimming bacteria: Experiments and models.
PHYSICAL REVIEW E, 98(3),
032415,
2018.
[DOI: 10.1103/PhysRevE.98.032415]
•
M. Becker, T. Frenzel, T. Niedermayer, S. Reichelt, A. Mielke and M. Bär
Local control of globally competing patterns in coupled Swift–Hohenberg equations.
Chaos: An Interdisciplinary Journal of Nonlinear Science, 28(4),
043121,
2018.
[DOI: 10.1063/1.5018139]
•
H. Reinken, S. H. L. Klapp, M. Bär and S. Heidenreich
Derivation of a hydrodynamic theory for mesoscale dynamics in microswimmer suspensions.
Physical Review E 97, 97(2),
022613,
2018.
[DOI: 10.1103/PhysRevE.97.022613]

2017

•
P. Buran, M. Bär, S. Alonso and T. Niedermayer
Control of electrical turbulence by periodic excitation of cardiac tissue.
Chaos, 27(11),
113110,
2017.
[DOI: 10.1063/1.5010787]
•
H. Gross, S. Heidenreich and M. Bär
Impact of different stochastic line edge roughness patterns on measurements in scatterometry - a simulation study.
Measurement, 98
339--346,
2017.
[DOI: 10.1016/j.measurement.2016.08.027]
•
S. Heidenreich, H. Gross, M. Bär and L. Wright
Uncertainty propagation in computationally expensive models: A survey of sampling methods and application to scatterometry.
Measurement, 97(79--87),
2017.
[DOI: 10.1016/j.measurement.2016.06.009]

2016

•
S. Alonso, R. Weber dos Santos and M. Bär
Reentry and Ectopic Pacemakers Emerge in aThree-Dimensional Model for a Slab of Cardiac Tissue with Diffuse Microfibrosis nearthe Percolation Threshold.
PLOS One, 11(11),
2016.
[DOI: 10.1371/journal.pone.0166972]
•
R. Großmann, F. Peruani and M. Bär
Mesoscale pattern formation of self-propelled rodswith velocity reversal.
Phys. Rev. E, 94(5),
050602,
2016.
[DOI: 10.1103/PhysRevE.94.050602]
•
S. Heidenreich, J. Dunkel, H. Klapp and M. Bär
Hydrodynamic length-scale selection in microswimmer suspensions.
Physical Review E, 94(2),
020601,
2016.
[DOI: 10.1103/PhysRevE.94.020601]
•
S. Alonso, M. Bär and B. Echebarria
Nonlinear physics of electrical wave propagation in the heart: a review.
Reports on Progress in Physics, 79(9),
096601,
2016.
[DOI: 10.1088/0034-4885/79/9/096601]
•
S. Alonso and M. Bär
Reentry produced by small-scale heterogeneities in a discrete model of cardiac tissue.
Journal of Physics: Conference Series, 727(1),
012002,
2016.
[DOI: 10.1088/1742-6596/727/1/012002]
•
R. Großmann, F. Peruani and M. Bär
Superdiffusion, large-scale synchronization, and topological defects.
Phys. Rev. E, 93
2016.
[DOI: 10.1103/PhysRevE.93.040102]
•
R. Großmann, F. Peruani and M. Bär
Diffusion properties of active particles with directional reversal.
New J. Phys, 18
2016.
[DOI: 10.1088/1367-2630/18/4/043009]
•
A. Oza, S. Heidenreich and J. Dunkel
Generalized Swift-Hohenberg models for dense active suspensions.
Eur. Phys. J. E, 39(10),
97,
2016.
[DOI: 10.1140/epje/i2016-16097-2]

2015

•
S. Heidenreich, H. Gross and M. Bär
Bayesian approach to the statistical inverse problem of scatterometry: Comparison of three surrogate models.
International Journal for Uncertainty Quantification,
511,
2015.
[DOI: 10.1615/Int.J.UncertaintyQuantification.2015013050]
•
R. Großmann, P. Romanczuk, M. Bär and L. Schimansky-Geier
Pattern formation in active particle systems due to competing alignment interactions.
Eur. Phys. J - Special Topics, 224(7),
1325-1347,
2015.
[DOI: 10.1140/epjst/e2015-02462-3]
•
H. Groß, S. Heidenreich, M.-A. Henn, M. Bär and A. Rathsfeld
Modeling aspects to improve the solution of the inverse problem in scatterometry.
Cont. Dyn. S. - S, 8
497-519,
2015.
[DOI: 10.3934/dcdss.2015.8.497]
•
T. Niedermayer and R. Lipowsky
Association-dissociation process with aging subunits: Recursive solution.
Phys. Rev. E, 92(5),
2015.
[DOI: 10.1103/PhysRevE.92.052137]

2014

•
D. Schüler, S. Alonso, A. Torcini and M. Bär
Spatio-temporal dynamics induced by competing instabilities in two asymmetrically coupled nonlinear evolution equations.
Chaos, 24(4),
043142,
2014.
[DOI: 10.1063/1.4905017]
[http://scitation.aip.org/...os/24/4/10.1063/1.4905017]
•
R. Großmann, P. Romanczuk, M. Bär and L. Schimansky-Geier
Vortex arrays and mesoscale turbulence of self-propelled particles.
Phys. Rev. Lett., 113(25),
258104,
2014.
[DOI: 10.1103/PhysRevLett.113.258104]
[http://www.ncbi.nlm.nih.gov/pubmed/25554911]
•
S. Heidenreich, H. Gross, M.-A. Henn, C. Elster and M. Bär
A surrogate model enables a Bayesian approach to the inverse problem of scatterometry.
J. Phys. Conf. Ser., 490(1),
012007,
2014.
[DOI: 10.1088/1742-6596/490/1/012007]
[http://iopscience.iop.org...88/1742-6596/490/1/012007]
•
M.-A. Henn, H. Gross, S. Heidenreich, F. Scholze, C. Elster and M. Bär
Improved reconstruction of critical dimensions in extreme ultraviolet scatterometry by modeling systematic errors.
Measurement Science and Technology, 25(4),
044003,
2014.
[DOI: 10.1088/0957-0233/25/4/044003]
[http://iopscience.iop.org...088/0957-0233/25/4/044003]
•
S. Heidenreich, S. H. L. Klapp and M. Bär
Numerical simulations of a minimal model for the fluid dynamics of dense bacterial suspensions.
J.Phys.: Conf. Ser., 490(1),
012126,
2014.
[DOI: 10.1088/1742-6596/490/1/012126]
[http://iopscience.iop.org...88/1742-6596/490/1/012126]
•
H. Groß, S. Heidenreich, M.-A. Henn, G. Dai, F. Scholze and M. Bär
Modelling line edge roughness in periodic line-space structures by Fourier optics to improve scatterometry.
J. Europ.Opt. Soci.Rap. Pub., 9
14003,
2014.
[DOI: 10.2971/jeos.2014.14003]
[http://www.jeos.org/index...os\_rp/article/view/14003]

2013

•
A. Jegou, T. Niedermayer, R. Lipowsky, M. Carlier and G. Romet-Lemonne
On Phosphate Release in Actin Filaments.
Biophysical journal, 104(12),
2013.
[DOI: 10.1016%2Fj.bpj.2013.05.019]
•
J. Dunkel, S. Heidenreich, K. Drescher, H. H. Wensink, M. Bär and R. E. Goldstein
Fluid Dynamics of Bacterial Turbulence.
Phys. Rev. Lett., 110
228102,
2013.
[DOI: 10.1103/PhysRevLett.110.228102]
•
J. Dunkel, S. Heidenreich, M. Bär and R. E. Goldstein
Minimal continuum theories of structure formation in dense active fluids.
New J. Phys., 15(4),
045016,
2013.
[DOI: 10.1088/1367-2630/15/4/045016]
[http://iopscience.iop.org...088/1367-2630/15/4/045016]
•
S. Alonso and M. Bär
Reentry near the percolation threshold in a heterogeneous discrete model for cardiac tissue.
Phys. Rev. Lett., 110(15),
158101,
2013.
[DOI: 10.1103/PhysRevLett.110.158101]
[http://www.ncbi.nlm.nih.gov/pubmed/25167313]

2012

•
T. Niedermayer, A. Jegou, L. Chieze, B. Guichard, E. Helfer, G. Romet-Lemonne, M. Carlier and R. Lipowsky
Intermittent depolymerization of actin filaments is caused by photo-induced dimerization of actin protomers.
Proc. Natl. Acad. Sci. U.S.A., 109(27),
10769--10774,
2012.
[DOI: 10.1073%2Fpnas.1121381109]
•
F. Peruani, J. Starruß, V. Jakovljevic, L. Søgaard-Andersen, A. Deutsch and M. Bär
Collective Motion and Nonequilibrium Cluster Formation in Colonies of Gliding Bacteria.
Phys. Rev. Lett., 108(9),
098102,
2012.
[DOI: 10.1103/PhysRevLett.108.098102]
[http://link.aps.org/doi/1...03/PhysRevLett.108.098102]
•
H. H. Wensink, J. Dunkel, S. Heidenreich, K. Drescher, R. E. Goldstein, H. Löwen and J. M. Yeomans
Meso-scale turbulence in living fluids.
Proc. Natl. Acad. Sci. U.S.A., 109(36),
14308--13,
2012.
[DOI: 10.1073/pnas.1202032109]
[http://www.pnas.org/content/109/36/14308]
•
M.-A. Henn, S. Heidenreich, H. Groß, A. Rathsfeld, F. Scholze and M. Bär
Improved grating reconstruction by determination of line roughness in extreme ultraviolet scatterometry.
Opt. Lett., 37(24),
5229--5231,
2012.
[DOI: 10.1364/OL.37.005229]
•
M.-A. Henn, H. Gross, F. Scholze, M. Wurm, C. Elster and M. Bär
A maximum likelihood approach to the inverse problem of scatterometry.
Optics Express, 20(12),
12771-86,
2012.
[DOI: 10.1364/OE.20.012771]
[http://www.osapublishing....1&seq=0&html=true]
•
H. Groß, M.-A. Henn, S. Heidenreich, A. Rathsfeld and M. Bär
Modeling of line roughness and its impact on the diffraction intensities and the reconstructed critical dimensions in scatterometry.
Appl. Opt., 51(30),
7384--94,
2012.
[DOI: 10.1364/AO.51.007384]
[http://www.osapublishing....4&seq=0&html=true]
•
B. Bodermann, P.-E. Hansen, S. Burger, M.-A. Henn, H. Gross, F. Scholze, J. Endres and M. Wurm
First steps towards a scatterometry reference standard.
SPIE Proc.
2012.

2011

•
K. Schmoller, T. Niedermayer, C. Zensen, C. Wurm and A. Bausch
Fragmentation Is Crucial for the Steady-State Dynamics of Actin Filaments.
Biophysical Journal, 101(4),
803--808,
2011.
[DOI: 10.1016%2Fj.bpj.2011.07.009]
•
A. Jegou, T. Niedermayer, J. Orban, R. Lipowsky, M. Carlier and G. Romet-Lemonne
Individual Actin Filaments in a Microfluidic Flow Reveal the Mechanism of {ATP} Hydrolysis and Give Insight Into the Properties of Profilin.
PLoS Biology, 9(9),
2011.
[DOI: 10.1371/journal.pbio.1001161]

2010

•
F. Ginelli, F. Peruani, M. Bär and H. Chaté
Large-scale collective properties of self-propelled rods.
Phys. Rev. Lett., 104(18),
184502,
2010.
[DOI: 10.1103/PhysRevLett.104.184502]
[http://www.ncbi.nlm.nih.gov/pubmed/20482178]

2008

•
T. Niedermayer, B. Eckhardt and P. Lenz
Synchronization, phase locking, and metachronal wave formation in ciliary chains.
Chaos, 18
2008.
[DOI: 10.1063/1.2956984]

2006

•
F. Peruani, A. Deutsch and M. Bär
Nonequilibrium clustering of self-propelled rods.
Physical Review E, 74(3),
030904,
2006.
[DOI: 10.1103/PhysRevE.74.030904]
[http://link.aps.org/doi/10.1103/PhysRevE.74.030904]
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