Biophysics of Systems (Master) – Übersicht
Informationen zur Vorlesung
Zeit und OrtMonday 14.00 - 17.30 over Zoom
We will explore the physics of biological systems, including their origin, evolution, pattern formation, embryogenesis, biochemical networks, chemotaxis, gene regulation, high throughput methods, neural networks and game theory. The lecture will include a short introduction to reaction-diffusion systems with Comsol. It is a 3 hour lecture, 1 hour seminar, 6 Credit Points - we can offer only the lecture for 4 credit points). The lecture is for Master students, open to other discilines and background on Cellular Biophysics, Molecular Biophysics and Theoretical Biophysics is helpful and recommended. Lecture is within the Biophysics Program of the Physics Master
2.11. Introduction to Biophysics of Systems (Slides)
From Evolution to (Synthetic) Biology. Introduction to the topic and the lecture.
Presentation of Seminar Topics - decisions on Seminar Slots. Seminar papers are found here.
Darwin and the phyolgenetic tree. Common strategies of life. Early evolution. Timeline of evolution. Chemical evolution: building blocks. Places for the origin of life. Hydrothermal chemistry. No Seminar.
16.11., 23.11., 30.11., How all began: the Emergence of Life
(Evolution history, Non-equilibrium pathways to life, Details 1,2,3,4)
Hydrothermal chemistry. Achaea. Hydrothermal accumulation. Convective PCR. Population Dynamics. Limited growth. Competition for food. Predator-Prey model. Eigen-Model of Molecular evolution. Error threshold. Oxygen crisis. Endosymbiotic development of eucaryotes.
16.11. Seminar: #1 given by Stefan Martin and Aaron Doering
23.11. Seminar: #2 given by Christiane Brummer
30.11. Seminar: #10 given by Margherita Gallano and Damla Tetiker
7.12. Bacterial Chemotaxis (Slides, Talk Cremer)
Locomotion of E-Coli, directional movement, run and tumble, Che-Protein network, adaptation, Sensitivity, Cooperative Binding, Hill equation, Konformation model of receptor, Ising model of receptor field, Boolean Algebra within receptor fields.
Seminar: #6 given by Matthias Gouder and Sebastian Jung
14.12. Chemotaxis of Eukaryotes (Slides, Neural growth cones)
Chemotaxis of Dictyostelia. Outlook: Chemotaxis in Brain development.
Seminar: #7 given by Felix Dänekamp and Kerstin Kellermann
21.12. Pattern formation (Slides), Hydra (Slides), Embryogenesis (Slides), Gene regulation (Slides), Stochastic Genes (Slides)
Biological pattern formation and morphogenesis. Activator-Inhibitor models. Structure formation in space and time. Oscillating reactions. Hydra. Embyrogenesis.
Seminar: #12 given by Jara Hintz
11.1. Modeling of Reaction-Diffusion Systems with Comsol introduction (Comsol Files)
Introduction to the finite element modelling of reaction-diffusion systems with examples from Embryogenesis and reaction oscillation systems. Simulations will be programmed in Comsol, with the possibility for hands on programming on your notebook.
Seminar: #13 given by Rafal Kowalewski and Adam Vyjidak
18.1. Neural Networks (Slides)
Basics Models and physiological Basis of Neural networks
Seminar: #3 given by Nicole Popst and Martin Großhauser
25.1. Game theory and evolution (Slides Game Theory, Slides sequence selection in ligation)
Description of economic processes, application in population dynamics
Seminar: #20 given by Miguel Atienza
1.02. Physically motivated models of monetary exchange (Feynman-Bookkeeping, Money Instability)
Introduction to concepts of econophysics applied to the exchange of goods between subjects. Random exchange models and their (dis)ability to memorize past exchanges.
Seminar: #11 given by Benedikt Illich
Exams: The exam times are as below. Oral exams are via above Zoom.
Please send your bring your filled out "Schein" to the exam. Here is a prefilled version.
13.00 R Kowalewski
13.20 S Jung
13.40 M Gouder
14.00 J Hintz
14.20 N Popst
15.00 D Tetiker
15.20 P Aikkila
15.40 C Brummer
16.00 F Dänekamp
16.20 M Gallano
16.40 M Atienza
17.00 M Großhauser
13.00 break Illich
13.20 A Vyjidak
13.40 K Kellermann
14.00 S Martin
14.20 A Döring
Verantwortlich für den Inhalt: Dieter Braun