Linking the RQs within PN 2
Biological systems are shaped by interacting processes across multiple spatial and temporal scales and vary considerably between individuals. PN 2 investigated how detailed computational models could capture this complexity while integrating system-specific data to enable more individualized and predictive simulations.
The research focused on coupled models of the neuromuscular system as well as proliferative and degenerative diseases. It combined biological knowledge, experimental and clinical data, mathematical modelling and computational methods to connect processes from the cellular level to tissues, organs and whole-system behaviour.
Research Focus
The research addressed four closely connected challenges:
- Multiscale system models: How could models of cells, tissues and organs be linked across different spatial and temporal scales?
- Data-integrated modelling: How could heterogeneous biological data and detailed biophysical models be combined to capture complex system behaviour?
- Individualization: How could population and patient-specific data be used to move from generic towards individualized models?
- Reusable and efficient simulation: How could models and data be standardized, shared and simulated efficiently even with limited computational resources?
Projects
| Development of a data-integrated ODE and agent-based simulation framework that captures and predicts responsiveness to targeted cancer therapeutics | Markus Morrison (Nicole Radde, Kristyna Pluhackova) |
| Data-enhanced prediction of organ-specific tumor growth in the liver - a hybrid knowledge and data-driven approach | Tim Ricken (Benjamin Uekermann) |
| Separating motor and neural effects of somatosensory perturbations | Oliver Röhrle (Jürgen Pleiss) |
| Software-driven RDM (sdRDM), a generic and extensible bottom-up research data management concept and its application in biocatalysis and beyond | Jürgen Pleiss |
| Modelling of architectural-informed and activation-driven contractions of the human M. tibialis anterior | Oliver Röhrle, Tobias Siebert |
| Methodology for the calibration and analysis of stochastic models for heterogeneous intracellular processes with applications in cancer development | Nicole Radde (Markus Morrison, Anneli Guthke) |
| Data-integrated modeling to provide novel solutions for individualizing cancer therapy and predicting treatment success | Markus Morrison (Nicole Radde) |
| Data-integrated modeling to provide novel solutions for individualizing cancer therapy and predicting treatment success | Nicole Radde (Markus Morrison) |
| Data- and model-driven multiscale simulation of tumor growth in liver cell, tissue, and organ | Tim Ricken (Arndt Wagner) |
| Data-integrated simulation of tumour growth and regression in brain tissue | Arndt Wagner (Tim Ricken) |
| Investigating sensorimotor interaction through selective sensory perturbations | Leonardo Gizzi (Syn Schmitt) |
| Enhanced proprioceptor dynamics to predict sensorimoto interaction of a biophysical hand-arm-model | Syn Schmitt (Leonardo Gizzi) |
| Machine learning-based decomposition of the activity of individual motor units from synthetic and experimental data | Oliver Röhrle, Bin Yang |
| Molecular dynamics simulations of the substrate recognition of protein lysine methyltransferases | Albert Jeltsch (Jürgen Pleiss) |
| Seamless data flow by EnzymeML, an SBML-based exchange format for the integration of enzymatic reaction data | Jürgen Pleiss |
| Data-integrated training of surrogate models for uncertainty quantification and diagnostics of complex biological systems models | Anneli Guthke |
Associated projets
| P7-Modeling of function-perfusion-deformation interaction on liver lobules and cellular scale based on a bi-scale continuum FEM model | Tim Ricken |
| SIMulation supported LIVer Assessment for donor organs (SimLivA) - Continuum-biomechanical modeling for staging of ischemia reperfusion injury during liver transplantation | Tim Ricken, Uta Dahmen, Hans-Michael Tautenhahn |
| Validation of recent theories of skeletal muscle contraction: experiments and modelling | Tobias Siebert |
| Effective propulsion in viscoelastic solid by reducing the resis tive force | Tian Qiu |
| Modeling and analysis of synthetic, methylation based, epigenetic gene circuits | Nicole Radde |
| Statistical methods for data integration into multi-scale models and uncertainty tracking in Systems Medicine of the Liver | Nicole Radde |
Project Network Coordinators
Nicole Radde
Prof. Dr. rer. nat.Mathematical Modeling and Simulation of Cellular Systems
Oliver Röhrle
Prof.Continuum Biomechanics and Mechanobiology