Difference between revisions of "Michael Kuron"
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| + | I am a master student in [[Christian Holm]]'s group, working with [[Joost de Graaf]] and [[Georg Rempfer]] on electrokinetics and active colloids. | ||
| + | My master's project includes implementing the necessary models in [http://www.walberla.net waLBerla], a highly-scalable grid framework for applications such as lattice-Boltzmann and solving partial differential equations. | ||
| + | This shall then be used to study self-propelled particles. | ||
| + | |||
| + | === Publications === | ||
| + | <bibentry>kuron15a</bibentry> | ||
=== Bachelor Thesis === | === Bachelor Thesis === | ||
Revision as of 16:04, 27 March 2015
Master 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 |
I am a master student in Christian Holm's group, working with Joost de Graaf and Georg Rempfer on electrokinetics and active colloids. My master's project includes implementing the necessary models in waLBerla, a highly-scalable grid framework for applications such as lattice-Boltzmann and solving partial differential equations. This shall then be used to study self-propelled particles.
Publications
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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]
Bachelor Thesis
"Like-Charge Attraction in DNA" (file does not exist!), 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 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.