Difference between revisions of "Michael Kuron"

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{{Person
 
{{Person
 
|name=Kuron, Michael
 
|name=Kuron, Michael
−
|status=Master student
+
|status=PhD student
 
|phone=67715
 
|phone=67715
 
|room=1.041
 
|room=1.041
 
|email=mkuron
 
|email=mkuron
−
|category=arnold
+
|category=former
 +
|category1=holm
 
|image=Michael_kuron.jpg
 
|image=Michael_kuron.jpg
−
|topical=electrokinetics
+
|topical=active
 +
|topical2=espresso
 +
|topical3=hydrodynamics
 
}}
 
}}
  
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=== Bachelor Thesis ===
+
== Publications ==
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{{Download|BSc_Thesis_Kuron.pdf|"Like-Charge Attraction in DNA"}}, 2013, Institute for Computational Physics, Stuttgart
 
  
−
For this thesis, the MMM1D algorithm was ported to GPGPU. This resulted in a 40-fold performance increase over the previous implementation in {{es}} and now allows for Molecular Dynamics simulations with electrostatic interactions in 1D-periodic geometries with several thousand particles.
+
<bibentry>kuron21a</bibentry>
 +
<bibentry>bauer21a</bibentry>
 +
<bibentry>kuron19b</bibentry>
 +
<bibentry>kuron19a</bibentry>
 +
<bibentry>weik19a</bibentry>
 +
<bibentry>kuron18a</bibentry>
 +
<bibentry>kuron16a</bibentry>
 +
<bibentry>kuron15a</bibentry>
 +
 
 +
== Dissertation ==
 +
 
 +
<bibentry>kuron21b</bibentry>
 +
 
 +
I wrote this dissertation as a PhD student of [[Christian Holm]] under co-supervision of [http://www.staff.science.uu.nl/~graaf156/ Joost de Graaf].
 +
It contains material from some of the above publications, but covers many things in more depth and provides additional results and insight that were obtained after the papers had been published.
 +
 
 +
== Master's Thesis ==
 +
 
 +
<bibentry>kuron15b</bibentry>
 +
 
 +
For this thesis, supervised by [[Joost de Graaf]] and [[Georg Rempfer]], [http://www.walberla.net waLBerla], a highly-scalable grid framework for applications such as lattice-Boltzmann and solving partial differential equations, was extended so that it can be used for simulating the electrokinetics of active colloids.
 +
 
 +
== Bachelor Thesis ==
 +
 
 +
<bibentry>kuron13a</bibentry>
 +
 
 +
For this thesis, supervised by [[Axel Arnold]], the MMM1D algorithm was ported to GPGPU. This resulted in a 40-fold performance increase over the previous implementation in {{es}} and now allows for Molecular Dynamics simulations with electrostatic interactions in 1D-periodic geometries with several thousand particles.
  
 
Using this, simulations with various simple DNA models were performed.
 
Using this, simulations with various simple DNA models were performed.
 
These simulations show that charge discretization and phase shifts between DNA molecules, modeled as rods, have a significant influence on their attractive properties, an effect that previous works disregarded as it was computationally too expensive, even though it turns out to be too large to neglect for realistic results.
 
These simulations show that charge discretization and phase shifts between DNA molecules, modeled as rods, have a significant influence on their attractive properties, an effect that previous works disregarded as it was computationally too expensive, even though it turns out to be too large to neglect for realistic results.
 
Curling up the discretely charged rods into helices, thus making the most accurate model of DNA that could be simulated with the limits of time and resources for this thesis, reveals further geometry dependencies and again a strong influence of a phase shift between the two helices. For phase shifts of 180°, the results for the continuous rods are mostly recovered for large Bjerrum lengths, but for any other phase shift, the forces are weaker, albeit still attractive.
 
Curling up the discretely charged rods into helices, thus making the most accurate model of DNA that could be simulated with the limits of time and resources for this thesis, reveals further geometry dependencies and again a strong influence of a phase shift between the two helices. For phase shifts of 180°, the results for the continuous rods are mostly recovered for large Bjerrum lengths, but for any other phase shift, the forces are weaker, albeit still attractive.
 +
 +
== Teaching ==
 +
 +
* [[Physik auf dem Computer SS 2020|Physik auf dem Computer]] (SS 20)
 +
* [[Computergrundlagen WS 2019/2020|Computergrundlagen]] (WS 19/20)
 +
* [[Computergrundlagen WS 2018/2019|Computergrundlagen]] (WS 18/19)
 +
* [[Simulation Methods in Physics I WS 2017/2018|Simulation Methods in Physics I]] (WS 17/18)
 +
* [[Physik auf dem Computer SS 2017|Physik auf dem Computer]] (SS 17)
 +
* [[Hauptseminar Active Matter SS 2017|Hauptseminar Active Matter]] (SS 17)
 +
* [[Simulation Methods in Physics I WS 2016/2017|Simulation Methods in Physics I]] (WS 16/17)
 +
* [[Physik auf dem Computer SS 2016|Physik auf dem Computer]] (SS 16)
 +
* [[Simulation Methods in Physics I WS 2015/2016|Simulation Methods in Physics I]] (WS 15/16)
 +
 +
== Students ==
 +
 +
<bibentry>stewart18a</bibentry>
 +
<bibentry>staerk18a</bibentry>
 +
<bibentry>burkard17a</bibentry>
 +
 +
== Find Me on the Web ==
 +
 +
* [https://arxiv.org/search/?searchtype=author&query=Kuron%2C+M arXiv]
 +
* [https://scholar.google.com/citations?user=vnkLuDkAAAAJ&hl=de&oi=ao Google Scholar]
 +
* [https://orcid.org/0000-0002-3231-3330 ORCID ID]
 +
 +
* [https://github.com/mkuron GitHub]
 +
* [https://blog.michael.kuron-germany.de My personal blog]

Latest revision as of 17:34, 2 April 2022

As Michael Kuron is not a member of our working group anymore, the information on this page might be outdated.
Michael kuron.jpg
Michael Kuron
PhD student
Office:1.041
Phone:+49 711 685-67715
Fax:+49 711 685-63658
Email:mkuron _at_ icp.uni-stuttgart.de
Address:Michael Kuron
Institute for Computational Physics
Universität Stuttgart
Allmandring 3
70569 Stuttgart
Germany

Publications

  • Michael Kuron, Cameron Stewart, Joost de Graaf, Christian Holm.
    An extensible lattice Boltzmann method for viscoelastic flows: complex and moving boundaries in Oldroyd-B fluids.
    European Physical Journal E 44(1):1–14, 2021.
    [PDF] (1.3 MB) [Preprint] [DOI]
  • Martin Bauer, Sebastian Eibl, Christian Godenschwager, Nils Kohl, Michael Kuron, Christoph Rettinger, Florian Schornbaum, Christoph Schwarzmeier, Dominik Thönnes, Harald Köstler, Ulrich Rüde.
    waLBerla: A block-structured high-performance framework for multiphysics simulations.
    Computers & Mathematics with Applications 81:478–501, 2021.
    [PDF] (2.9 MB) [Preprint] [DOI]
  • Michael Kuron, Philipp Stärk, Christian Holm, Joost de Graaf.
    Hydrodynamic mobility reversal of squirmers near flat and curved surfaces.
    Soft Matter 15(29):5908–5920, 2019.
    [PDF] (4.2 MB) [Preprint] [DOI]
  • Michael Kuron, Philipp Stärk, Christian Burkard, Joost de Graaf, Christian Holm.
    A lattice Boltzmann model for squirmers.
    The Journal of Chemical Physics 150(14):144110, 2019.
    [PDF] (1.1 MB) [Preprint] [DOI]
  • Florian Weik, Rudolf Weeber, Kai Szuttor, Konrad Breitsprecher, Joost de Graaf, Michael Kuron, Jonas Landsgesell, Henri Menke, David Sean, Christian Holm.
    ESPResSo 4.0 – an extensible software package for simulating soft matter systems.
    European Physical Journal Special Topics 227(14):1789–1816, 2019.
    [PDF] (1.0 MB) [DOI]
  • Michael Kuron, Patrick Kreissl, Christian Holm.
    Toward Understanding of Self-Electrophoretic Propulsion under Realistic Conditions: From Bulk Reactions to Confinement Effects.
    Accounts of Chemical Research 51(12):2998–3005, 2018.
    [PDF] (3.6 MB) [DOI]
  • Michael Kuron, Georg Rempfer, Florian Schornbaum, Martin Bauer, Christian Godenschwager, Christian Holm, Joost de Graaf.
    Moving charged particles in lattice Boltzmann-based electrokinetics.
    The Journal of Chemical Physics 145(21):214102, 2016.
    [PDF] (718 KB) [DOI]
  • Michael Kuron, Axel Arnold.
    Role of geometrical shape in like-charge attraction of DNA.
    European Physical Journal E 38:20, 2015.
    [PDF] (1.1 MB) [DOI]


Dissertation

  • Michael Kuron.
    Lattice Boltzmann methods for microswimmers in complex environments.
    PhD thesis, Universität Stuttgart, 2021.
    [DOI] [URL]


I wrote this dissertation as a PhD student of Christian Holm under co-supervision of Joost de Graaf. It contains material from some of the above publications, but covers many things in more depth and provides additional results and insight that were obtained after the papers had been published.

Master's Thesis

  • Michael Kuron.
    Efficient Lattice Boltzmann Algorithms for Colloids Undergoing Electrophoresis.
    Master's thesis, University of Stuttgart, 2015.


For this thesis, supervised by Joost de Graaf and Georg Rempfer, waLBerla, a highly-scalable grid framework for applications such as lattice-Boltzmann and solving partial differential equations, was extended so that it can be used for simulating the electrokinetics of active colloids.

Bachelor Thesis

  • Michael Kuron.
    Like-Charge Attraction in DNA.
    Bachelor's thesis, University of Stuttgart, 2013.


For this thesis, supervised by Axel Arnold, the MMM1D algorithm was ported to GPGPU. This resulted in a 40-fold performance increase over the previous implementation in ESPResSo and now allows for Molecular Dynamics simulations with electrostatic interactions in 1D-periodic geometries with several thousand particles.

Using this, simulations with various simple DNA models were performed. These simulations show that charge discretization and phase shifts between DNA molecules, modeled as rods, have a significant influence on their attractive properties, an effect that previous works disregarded as it was computationally too expensive, even though it turns out to be too large to neglect for realistic results. Curling up the discretely charged rods into helices, thus making the most accurate model of DNA that could be simulated with the limits of time and resources for this thesis, reveals further geometry dependencies and again a strong influence of a phase shift between the two helices. For phase shifts of 180°, the results for the continuous rods are mostly recovered for large Bjerrum lengths, but for any other phase shift, the forces are weaker, albeit still attractive.

Teaching

Students

  • Cameron Stewart.
    Development of a Lattice-Boltzmann Based Oldroyd-B Model for Simulating Viscoelastic Fluids.
    Master's thesis, University of Stuttgart, 2018.
  • Philipp Stärk.
    Toward Swimming in Porous Networks: Interactions between Microswimmers and Obstacles.
    Bachelor's thesis, University of Stuttgart, 2018.
  • Christian Burkard.
    Investigating the Behaviour of Active Colloids at Interfaces Using the Squirmer Model and the Lattice Boltzmann Algorithm.
    Bachelor's thesis, University of Stuttgart, 2017.


Find Me on the Web

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