Browsing GGNB - Göttinger Graduiertenzentrum für Neurowissenschaften, Biophysik und molekulare Biowissenschaften by Referee "Klumpp, Stefan Prof. Dr."
Now showing items 1-20 of 28
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Cytoskeletal networks in living cells under strain
(2025-07-15)The eukaryotic cytoskeleton consists of three types of filamentous proteins: actin filaments, microtubules and intermediate filaments (IFs). In contrast to actin and tubulin, IF proteins are expressed in a cell-type specific ... -
Inferring spreading dynamics of diseases and in neural networks
(2025-06-11)The rapid advancement in information technology over the past few decades has provided ample computational power and access to diverse data sources. In conjunction with recent inference methods, we can now examine the ... -
Protein Mobility in the Complex Physical Environment of the Synapse
(2025-05-22)Robust signal transmission between cells is vital for our daily lives. It relies on fine orchestration of many processes, particularly taking place at chemical synapses. Here, chemical reactions occur in precise order, ... -
Bayesian Inference for Top-Down Protein Markov Models and the Ubiquity of Michaelis-Menten Kinetics
(2024-10-04)The current understanding of protein function predominantly relies on the concept of describing proteins as comprising discrete conformational and chemical states including transitions between these states. The theory of ... -
Interactions between cytoskeletal filaments in cells
(2024-10-04)Essential functions of eukaryotic cells such as cell division, force generation and the ability to mechanically adapt to the outer environment depend on the cytoskeleton, which is an intricate network containing three ... -
Dynamics and Machine Learning Inference using Memory in Stochastic Biochemical Reaction Networks
(2024-06-24)In this thesis we study the dynamics of non-equilibrium stochastic chemical reaction networks with a special focus on biochemical networks. In the regime of large intrinsic noise where the numbers of participating molecules ... -
Functional photoreceptors regulating light-switchable adhesion of Chlamydomonas to surfaces
(2024-04-08)The harnessing of light is one of the most remarkable evolutionary features of microalgae, allowing them to adapt and thrive in highly dynamic environments. In order to respond to environmental changes, these photoactive ... -
Collective Behaviour of Filamentous Cyanobacteria
(2024-01-11)Cyanobacteria are the oldest phototrophic organisms on the planet. Having been responsible for the “Great Oxidation Event” millions of years ago, it has enabled the development and sustenance of multi-cellular life forms, ... -
Non-equilibrium Statistical Mechanics Studied Through the Lens of Stochastic Calculus
(2024-01-11)The microscopic world of atoms and molecules is continuously in motion, which is manifested on the macroscopic scale as a non-zero temperature. Due to collisions with surrounding molecules that perform thermal motion, many ... -
Complex Dynamics in the Spread of COVID-19
(2023-05-05)The COVID-19 pandemic is the most recent example that infectious diseases can disrupt and permanently alter how societies work and interact. This manuscript builds around a series of papers studying disease spread from the ... -
Turbulence Measurements in Flows with Particles
(2023-01-31)Despite the ubiquity of turbulent flows in nature, a general solution to the governing equations of motion remain elusive. These equations are nonlinear and nonlocal, and they describe a chaotic system with multi-scale ... -
A Minimal Approach to the Dynamic Regulation of Biomolecular Conformation
(2022-12-14)Allostery is the key mechanism enabling a “remote” regulation of the activity of proteins and other biological macromolecules. It forms the basis for controlling various inter- and intracellular processes. Allosteric ... -
Protein Interactions in minimal cells
(2022-05-18)Minimal cells are used to model and understand life’s complex processes. The most essential processes of life are thought to include cell replication, energy metabolism and genome maintenance. However, construction of a ... -
Intermediate filament mechanics across scales
(2022-02-24)The mechanical properties of cells are largely determined by the cytoskeleton. The cytoskeleton is an intricate and complex structure formed by protein filaments, motor proteins, and crosslinkers. The three main types of ... -
Impact of mechanically-regulated auxin transport dynamics on plant morphogenesis
(2021-10-21)Auxin is a major plant growth regulator whose interaction with cell wall properties is central to its role. Efflux carriers of this phytohormone of the PIN-FORMED family (PIN) respond to the mechanical state of the tissue. ... -
The Role of Synaptic Tagging and Capture for Memory Dynamics in Spiking Neural Networks
(2021-09-02)Memory serves to process and store information about experiences such that this information can be used in future situations. The transfer from transient storage into long-term memory, which retains information for hours, ... -
Self-organization of microtubules for biomimetic structures
(2021-07-05)Biological polymers that build up the eukaryotic cytoskeleton exhibit a rich dynamical behaviour that aid a multitude of cellular processes. Microtubules, together with their associated motor proteins in the cell are ... -
Reverse-time inference of biological dynamics
(2020-10-27)In this work I derive a mathematical theory that allows to infer directional biological dynamics in reverse time starting from their target state. I use this approach to infer an effective model of cell junction shrinkage ... -
Molecular DNA Sensors to Measure Distribution of Cytoskeletal Forces
(2020-08-24)Actin, a major cytoskeletal biopolymer in eukaryotic cells, is crosslinked into networks of filaments and bundles. These networks are largely responsible for the maintenance of cellular shape, rigidity, and mechanical ... -
Impact of Structure Modification on Cardiomyocyte Functionality
(2020-05-28)Cardiac diseases are often related to defects in subcellular components of the heart’s main constituents, the heart muscle cells also called cardiac myocytes. These biological cells periodically contract due to ...