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- Paul J. Atzberger, Peter R. Kramer, Charles S. Peskin
- J. Comput. Physics
- 2007

In modeling many biological systems, it is important to take into account the interaction of flexible structures with a fluid. At the length scale of cells and cell organelles, thermal fluctuationsâ€¦ (More)

- Paul J. Atzberger
- J. Comput. Physics
- 2011

We present approaches for the study of fluid-structure interactions subject to thermal fluctuations. A mixed mechanical description is utilized combining Eulerian and Lagrangian reference frames. Weâ€¦ (More)

Abstract. In this paper a direct correspondence is made between the effective stochastic dynamics of elastic structures of an Immersed Boundary Method incorporating thermal fluctuations andâ€¦ (More)

- Chetan D. Pahlajani, Paul J. Atzberger, Mustafa Khammash
- Journal of theoretical biology
- 2011

Many processes in cell biology encode and process information and enact responses by modulating the concentrations of biological molecules. Such modulations serve functions ranging from encoding andâ€¦ (More)

- Pat Plunkett, Jonathan J. Hu, Christopher M. Siefert, Paul J. Atzberger
- J. Comput. Physics
- 2014

We develop stochastic mixed finite element methods for spatially adaptive simulations of fluid-structure interactions when subject to thermal fluctuations. To account for thermal fluctuations, weâ€¦ (More)

- Xinhui Lou, Jiangrong Qian, +7 authors H. Tom Soh
- Proceedings of the National Academy of Sciencesâ€¦
- 2009

Aptamers are nucleic acid molecules that have been selected in vitro to bind to their molecular targets with high affinity and specificity. Typically, the systematic evolution of ligands byâ€¦ (More)

- Paul J. Atzberger
- J. Comput. Physics
- 2010

Stochastic partial differential equations are introduced for the continuum concentration fields of reaction-diffusion systems. The stochastic partial differential equations account for fluctuationsâ€¦ (More)

- Paul J. Atzberger, Peter R. Kramer
- Physical review. E, Statistical, nonlinear, andâ€¦
- 2007

The basic ingredient of osmotic pressure is a solvent fluid with a soluble molecular species which is restricted to a chamber by a boundary which is permeable to the solvent fluid but impermeable toâ€¦ (More)

- Ava J. Mauro, Jon Karl Sigurdsson, Justin Shrake, Paul J. Atzberger, Samuel A. Isaacson
- J. Comput. Physics
- 2014

Stochastic reaction-diffusion models are now a popular tool for studying physical systems in which both the explicit diffusion of molecules and noise in the chemical reaction process play importantâ€¦ (More)

We explore the theoretical foundations for the inclusion of thermal fluctuations in the immersed boundary method for simulating microscale fluid systems with immersed flexible structures, as inâ€¦ (More)