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Das Team des IST

Mrs. Prof. Dr. rer. nat.
Nicole Radde
Systems Theory in Systems Biology

This picture shows  Nicole Radde
Phone0049 711 685-67729
Fax0049 711 685-67735
Room2.243
Email address
Address
University of Stuttgart
Institute for Systems Theory and Automatic Control
Pfaffenwaldring 9
70569 Stuttgart
Germany
Consultation

On appointment

Profile:

  

My research focuses on the modeling and analysis of intracellular regulation processes. The ultimate goal is the development and application of mathematical methods to facilitate a better systemic understanding of these processes for particular subsystems and the organization of molecular regulation mechanisms in general. My group works in close collaboration with partners from molecular and cellular biology. I focus in particular on the following topics:
  • Dynamic modeling of intracellular regulation processes
  • Statistical sampling-based approaches for parameter estimation and predictions
  • Analysis methods for intracellular regulation networs based on their network topology

I am a member of the Excellence Cluster 'Simulation Technology', which is funded by the German Research Foundation (EXC 310/1), the 'Stuttgart Research Center Systems Biology' and the SFB TRR 141 'Biological Design and Integrative Structures'
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Some recent and selected publications
  • Jensch A, Thomaseth C, Radde N (2017). Sampling-based Bayesian approaches reveal the importance of quasi-bistable behavior in cellular decision processes on the example of the MAPK signaling pathway, BMC Syst Biol (2017), 11:11, doi:10.1186/s12918-017-0392-6.
  • Thomaseth C, Kuritz K, Allgöwer F, Radde N (2016). The circuit-breaking algorithm for monotone systems, Math Biosci, 284, 80-91, doi:10.1016/j.mbs.2016.09.002.
  • Radde N, Hütt M-T (2016). The Physics behind Systems Biology, Eur Phys J Nonlin Biomed Phys 4(1), 1-19.
  • Kirch J, Thomaseth C, Jensch A, Radde N (2016). The effect of model rescaling and normalization on sensitivity analysis on an example of a MAPK pathway model, Eur Phys J Nonlin Biomed Phys 4(1), 1-23.
  • Geissen EM, Hasenauer J, Heinrich S, Hauf S, Radde N (2016). MEMO - Multi-experiment mixture model analysis for censored data, Bioinformatics 32(16), 2464-72, doi: 10.1093/bioinformatics/btw190.
  • Weber P, Hornjik M, Olayioye MA, Hausser, A, Radde N (2015). A computational model of PKD and CERT interactions at the trans-Golgi network of mammalian cells, BMC Syst Biol, 9:9, doi:10.1186/s12918-015-0147-1.
  • Kramer A, Stathopoulus V, Girolami M, Radde N (2014). MCMC_CLIB: An advanced MCMC sampling package for ode models with highly correlated parameters, Bioinformatics 30(20), 2991-2, doi: 10.1093/bioinformatics/btu429.
  • Kramer A, Calderhead B, Radde N (2014). Hamiltonian Monte Carlo Methods for Efficient Parameter Estimation in Steady State Dynamical Systems, BMC Bioinf 2014, 15(1):253.
  • Heinrich S, Geissen E-M, Kamez J, Trautmann S, Widmer C, Knop M, Radde N, Hasenauer J, Hauf S (2013). Determinants for robustness in spindle assembly checkpoint signalling, Nat Cell Biol 15,1328-39.


A full pdf list of publications can be found here.

Teaching
My teaching activities are associated to the study programs Engineering Cybernetics, Technical Biology and Simulation Technology. Currently I teach the following courses:

Winter term Wahrscheinlichkeitstheorie und Statistik I (2 SWS)
  Introduction to Systems Biology (4 SWS, jointly with Dr.-Ing. Ronny Feuer)
  Statistische Lernverfahren und stochastische Regelung (4 SWS, jointly with Prof. Dr.-Ing. Christian Ebenbauer)
  Biologische Regelungssysteme (2 SWS)
  Dynamik biologischer Systeme (4 SWS)
  Grundlagen der Systembiologie/Systembiologie II (2 SWS)
 Summer term Praktikum Modellierung und Simulation in der Systembiologie (3 weeks full-time, jointly with Dr.-Ing. Ronny Feuer)
  Systems Theory in Systems Biology (4 SWS, jointly with Dr.-Ing. Ronny Feuer)
  Stochastische Prozesse und Modellierung (4 SWS, jointly with Prof. Dr.-Ing. Christian Ebenbauer)
  SimTech Seminar Bsc 4. semester (2 SWS, jointly with Jun.-Prof. Syn Schmitt)

A description of teaching activities of our institute can be found here.

My complete teaching history inlcuding evaluation results and supervised student projects can be seen here.
Short CV
  • Since 2015 Professor for Systems Theory in Systems Biology at the Institute for Systems Theory and Automatic Control (IST) at the University of Stuttgart.
  • 2008 - 2015 Junior Professor for Systems Theory in Systems Biology at the Institute for Systems Theory and Automatic Control (IST) at the University of Stuttgart.
  • 2007 - 2008 Postdoc at the Institute for Medical Informatics, Statistics and Epidemiology (IMISE) of the University Leipzig in Korbinian Strimmer's group 'Statistics and Computational Biology'.
  • 2007 PhD thesis 'Modeling Non-Linear Dynamic Phenomena in Biochemical Networks', Center for Applied Computer Science (ZAIK) at the University of Cologne, Prof. Ulrich Faigle
  • 2003 - 2007 PhD student at the Center for Applied Computer Science (ZAIK) at the University of Cologne 
  • 2002 'Erstes Staatsexamen' (First State Examination) in Physics and Mathematics, Technical University Darmstadt
  • 2002 Diploma in Phyiscs, Technical University Darmstadt, thesis title 'Neutrino Transport in Proto-Neutronensternen', 'Nuclei, Hadrons and Quarks (NHQ) group', Prof. Jochen Wambach
  • 1997 - 2002 Studies in Physics, TU Darmstadt
  • 1996 - 2002 'Lehramt' Mathematics and Physics, TU Darmstadt