W6 – Logical modelling of cellular networks



Date: Saturday September 8, 2018
Time: 9:00 – 17:00
Venue: TBA





Logical models have long been used to explore the dynamical behaviours of regulatory networks.

This workshop will provide an overview of recent methodological developments and applications on the use of the logical formalism for the modelling of regulatory networks.

Relying on a community effort with the Consortium for Logical Models and Tools (CoLoMoTo – http://colomoto.org​) to promote the exchange of models and to improve existing methods, this workshop will cover the following main topics:

  • Computational methods: attractor identification, model-checking, reduction techniques, network inference
  • Modelling tools: GINsim, CellNetOpt, boolSim, MaBoSS, CellCollective, EpiLog
  • Biological applications: signalling networks, cell differentiation, cell reprogramming

The workshop is articulated with a tutorial proposal (Sept 9th, 2018) organized by Tomas Helikar and Juilee Thakar, thereby forming a two-days long SIG meeting devoted to logical modelling of cellular networks.

The workshop day (Sept 8th, 2018) will be split in two sessions: the first session will be dedicated to recent methodological developments, the second session to biological case studies.
Each of these sessions will include one introductory talk.

At the end of the day, a round table with all speakers and the audience will be devoted to global discussions.



9h00-9h15 Welcome and introduction to the workshop
9h15-10h30 Session 1 – Methods and tools (3 to 4 talks)
10h30-11h00 Coffee/tea break
11h00-12h30 Session 1 – Methods and tools (3 to 4 talks)
12h30-13h30 Lunch break
13h30-15h00 Session 2 – Biological applications (3 to 4 talks)
15h00-15h30 Coffee/tea break
15h30-16h30 Session 2 – Biological applications (2 to 3 talks)
16h30-17h Round table



This workshop targets students and researchers interested in learning about the recent developments on modelling regulatory networks, ranging from recent biological applications, to the development of methods and tools. This workshop will be a unique opportunity for participants to discover and discuss state of the art methods in logical modelling and their applications to biological problems.



  • Ina Koch, Molecular Bioinformatics, Institute of Computer Science, Goethe-University Frankfurt am Main, Germany
  • Laurent Tournier,  MaIAGE, INRA, Université Paris-Saclay, Jouy-en-Josas, France



  • Matteo Barberis, University of Amsterdam, Netherlands
  • Claudine Chaouiya, Instituto Gulbenkian de Ciência, Portugal
  • Benjamin Hall, MRC Cancer Unit, University of Cambridge
  • Tomas Helikar, University of Nebraska – Lincoln, USA
  • Anna Niarakis, Univ Evry, Université Paris-Saclay, France
  • Julio Saez-Rodriguez, RWTH-Aachen University, Germany
  • Denis Thieffry, École Normale Supérieure, Paris, France
  • Ioannis Xenarios, Vital IT / Swiss Bioinformatics Institute, Switzerland
  • Juilee Thakar, University of Rochester Medical Center, Rochester, New York, USA



Abstract submissions for oral and poster presentations should be send to the following addresses anna.niaraki@univ-evry.fr, thieffry@ens.fr with the indication: ECCB18 Workshop Submission.

Abstracts should include title, author affiliation and contact information and a summary of the work that should not exceed 600 words.



Registration to the workshop is done through the ECCB registration page.



Submission Opening date: April 24, 2018
Submission Deadline (abstract): June 20, 2018
Notification: July 05, 2018
Workshop Date: September 8, 2018