Programme

Control Theory for Systems Biology, Groningen, November 12-14, 2007

All the activities of the workshop (except the workshop dinner) are held in the Medische Wetenschappen building (UMCG) located at Antonius Deusinglaan 1. The talks are held in the ‘Faberzaal’ of the the Medische Wetenschappen building.

Monday 12 November

10:00 - 11:00 Registration and coffee / tea

Theme: Metabolic networks

11:00 - 12:30 Jörg Stelling (ETH Zürich) Tutorial: Metabolic networks: introduction and control aspects

12:30 - 14:00 Lunch

14:00 - 14:45 Barbara Bakker (VU Amsterdam) The danger of glucose shortage and excess – interplay between experiment and model
14:45 - 15:30 Sef Heijnen (TU Delft) Metabolic reaction networks: modelling, experiments and model reduction

15:30 - 16:00 Break tea / coffee

16:00 - 16:45 Madalena Chaves (INRIA Sophia Antipolis) Stability of rate-controlled biochemical networks
16:45 - 17:30 Rodolphe Sepulchre (Université de Liège) A systems view on biochemical oscillators
17:30 - 18:00 Natal van Riel (TU Eindhoven) Parameter identification in biochemical networks; the identifiability versus robustness paradox

18:00 - 19:00 Reception (A. Deusinglaan 1, kantine souterrain)

Tuesday 13 November

Theme: Protein and genetic networks

09:00 - 10:30 Sjaak Philipsen (Erasmus University Rotterdam) Tutorial: Transcriptional regulation of gene expression in mammals

10:30 - 11:00 Break coffee / tea

11:00 - 11:45 Hidde de Jong (INRIA Rhone-Alpes) Qualitative simulation of the carbon starvation Response in Escherichia coli
11:45 - 12:30 Oscar Kuipers (University of Groningen) Bistability and systems biology of bacillus subtilis

12:30 - 14:00 Lunch

Theme: Protein and genetic networks

14:00 - 14:30 Frank Bruggeman (CWI / VU Amsterdam) Control and response analysis of intracellular regulatory networks
14:30 - 15:00 Arnaud Meyroneinc (CWI Amsterdam) Modelling the dynamics and regulations of genes expression and proteins interactions along erythropoiesis
15:00 - 15:30 Sacha van Hijum (Univ. of Greifswald / Univ. of Groningen) Practical issues in prokaryotic gene network reconstruction

15:30 - 16:00 Break tea / coffee

Theme: Control and system theory

16:00 - 16:45 Jean-Luc Gouzé (INRIA Sophia Antipolis) Piecewise-linear models of genetic regulatory networks: theory and example
16:45 - 17:30 Luc Habets (TU Eindhoven / CWI Amsterdam) Control of piecewise-affine and multi-affine hybrid systems - the control-to-facet approach
17:30 - 18:00 Eugenio Cinquemani (ETH Zürich) Stochastic hybrid modeling and parameter identification of genetic networks

19:30 - 22:00 Workshop dinner, Restaurant De Apedans, Verlengde Oosterstraat 1

Wednesday 14 November

Theme: Control and system theory

09:00 - 10:30 David Angeli (University of Florence) Tutorial: Dynamics of chemical reaction networks
10:30 - 11:00 Break coffee / tea

Theme: System identification and modeling

11:00 - 11:45 Giancarlo Ferrari-Trecate (University of Pavia) Identification of piecewise affine models of genetic regulatory networks
11:45 - 12:30 Eric Bullinger (University of Strathclyde) Identification of biochemical reaction networks: challenges and possible solutions

12:30 - 13:30 Lunch

Theme: Metabolic networks

13:30 - 14:15 Edda Klipp (Humboldt University / Max-Planck Institute Berlin) Metabolic modeling and approaches for drug target identification
14:15 - 15:00 Bas Teusink (NIZO Wageningen) Use of constraint-based modeling techniques in integrative bioinformatics and systems biology

15:00 - 15:30 Farewell and tea / coffee