Physical modeling of non-equilibrium processes in biological systems

 
Funding period 2017-2020
 

Announcements:

SFB-ITRG Workshop on Data and Image Analysis (Part II)

Fri, 14/12/2018 - 09:00 to 12:00
,
Campus SB, Building C62, physics CIP pool

Prof. Dr. Ludger Santen and Dr. Reza Shaebani
(
Host: Dr. Hendrik Hähl
)
Theoretical Physics, UdS (SB)

Workshop on Data and Image Analysis (Part II): Particle Image Velocimetry technique

The image processing part of the workshop focuses on the Particle Image Velocimetry (PIV) technique. While this method is widely used for flow visualization, it can be also adapted for tracking discrete particles in granular flows. PIV yields instantaneous velocity field measurements in a cross-section of the flow. We start from the basic principles underlying PIV. The goal is to learn how to develop an own PIV image processing code, avoid the possible sources of errors, and adapt it for tracking discrete passive/active particles in biological environments. The techniques developed for volumetric PIV will be also discussed.

SFB Seminar

Mon, 17/12/2018 - 16:15
,
Campus SB, Building E2 6, Room E04

Dr. Andreas Krämer
(
Host: Prof. Dr. Jochen Hub
)
National Institute of Health, Bethesda MD, USA

Membrane Permeability from Conventional MD Simulations: Counting Transitions vs. Bayesian Analysis

The permeation of small molecules through membranes can presently be observed in conventional (i.e., non-enhanced) molecular dynamics simulations. This contribution focuses on three important aspects of such calculations. (1) The advantages and disadvantages of calculating permeability by direct counting of transition events versus Bayesian analysis based on the inhomogeneous solubility diffusion model. (2) A new Python/C++ tool that speeds up a previous implementation of the Bayesian analysis by two orders of magnitude and allows permeabilities to be extracted in a matter of seconds from a previously generated trajectory. (3) Simulated and permeabilities of water, oxygen, and ethanol through various homogeneous bilayers. The results fall short of the experimental values, clearly demonstrating the requirement for accurate polarizable force fields.

IRTG Intro Lecture

Tue, 15/01/2019 - 14:15
,
Campus SB, Room E2 6 E04

Jun.-Prof. Franziska Lautenschläger
(
Host: Dr. Hendrik Hähl
)
INM

t.b.a.