The third CoLoMoTo meeting took place in Lausanne at the Center for Integrative Genomics (CIG), organised by Aurélien Naldi, Claudine Chaouiya and Ioannis Xenarios. A report of the meeting is also available.
Program
Thursday, 17
| Time | Who | Topic |
|---|---|---|
| 09:00 | Welcome and introduction | |
| 09:30 | A Naldi | GINsim |
| 10:00 | C Müssel, H Kestler | BoolNet |
| 10:30 | L Mendoza | SQUAD |
| 11:00 | T Helikar | the Cell Collective |
| 11:30 | P Varela | EpiLog |
| 12:00 | Lunch break | |
| 14:00 | P Monteiro | Attractors identification and quantification |
| 09:15 | T Cokelaer | CellNOpt |
| 15:00 | C Chaouiya, A Naldi | SBML qual package & SED-ML |
| 15:30 | A Dräger | JSBML |
| 16:00 | Discussion, working session |
Friday, 18
| Time | Who | Topic |
|---|---|---|
| 09:30 | H Klarner | On the Generalization of Fixpoints of Boolean Networks |
| 10:00 | P Monteiro | Model-checking applied to logical models |
| 10:30 | C Chaouiya | A Discrete Model of Drosophila Eggshell Patterning |
| 11:00 | L Calzone, G Stoll | Continuous time modelling with MaBoSS. Application to bladder tumorigenesis |
| 11:30 | Discussion | |
| 12:00 | Lunch break | |
| 14:00 | A Naldi | LogicalModel library, current status |
| 14:30 | Discussion, CoLoMoTo future (community, scope, founding, etc.) |
Participants
- Matteo Barberis (University of Amsterdam)
- Laurence Calzone (Institut Curie, France)
- Claudine Chaouiya (IGC, Portugal)
- Anastasia Chasapi (SIB, Switzerland)
- Thomas Cokelaer (EBI, UK)
- Isaac Crespo (SIB, Switzerland)
- Julien Dorier (SIB, Switzerland)
- Corina Dueñas Roca (Medical University of Warsaw)
- Tomas Helikar (University of Nebraska-Lincoln, US)
- Celine Hernandez (SIB, Switzerland)
- Hans Kestler (Medical Systems Biology, University of Ulm, Germany)
- Hannes Klarner (AG Biomathematics, FU Berlin, Germany)
- Luis Mendoza (UNAM, Mexico)
- Christoph Müssel (Medical Systems Biology, University of Ulm, Germany)
- Pedro Monteiro (INESC-ID & IGC, Portugal)
- Aurélien Naldi ( CIG - UNIL, Switzerland)
- Gautier Stoll (INSERM, UMR 1138, Eq. G. Kroemer, France)
- Denis Thieffry (ENS-IBENS, France)
- Pedro Varela (IGC, Portugal)
- Ioannis Xenarios (SIB, Switzerland)
Remote participants:
- Andreas Dräger (UCSD, US)
- Julio Saez-Rodriguez (EMBL-EBI, Cambridge UK)
Funding and Acknowledgements
SIB (Swiss Institute of Bioinformatics) and SystemsX.ch (Swiss Research Initiative in Systems Biology).