The workshop “Toward a common framework for annotated, accessible, reproducible and interoperable computational models in biology" will take place on September 13th, in Basel, Switzerland in the context of the [BC]2 conference. Computational models have long been used in Systems Biology to answer a variety of questions regarding the dynamical behaviours of complex systems. As the number of computational models rapidly increases, questions regarding models’ reproducibility and reusability, and model annotation in community-supported and standardised formats are needed more than ever.
The workshop will feature presentations from invited speakers:
Claudine Chaouiya (Aix-Marseille University, FR)
Dagmar Waltemath (Greifswald University, DE)
Henning Hermjacob (EBI, UK): BioModels
Falk Schreiber (University of Konstanz, DE)
Sarah Keating (UCL, UK)
Anne Siegel (IRISA, FR)
David Nickerson (University of Auckland, NZ)
James Glazier (University of Indiana, Bloomington, USA)
Anna Niarakis (Associate Professor; UEVE, Univ Paris-Saclay & INRIA Saclay; France)
Tomas Helikar (Associate Professor; University of Nebraska; USA)
Laurence Calzone (Research Scientist; Institut Curie, U900 INSERM & Mines Paris Tech; France)
Sylvain Soliman (Researcher; Lifeware & INRIA Saclay; France)
This workshop addresses students and researchers interested in learning about best practices in data/model curation/annotation and community standard developments, giving them a unique opportunity to discover and discuss state of the art in the field.
It brings together scientists involved in BioModels, (a central repository of mathematical models of biological/biomedical processes), COMBINE (the COmputational Modeling in BIology NEtwork), CoLoMoTo (the Consortium for Logical Models and Tools), SysMod (the Computational Modeling of Biological Systems Community of Special Interest of the International Society for Computational Biology (ISCB)), SBGN (the Systems Biology Graphical Notation project), SBML (Systems Biology Markup Language), SED-ML (Simulation Experiment Description Markup Language), and in other relevant projects.