Workshop at ECCB 2018

Anna Niarakis and Denis Thieffry organized a one-day workshop dedicated to Logical Modelling in the context of the European Conference on Computational Biology. This workshop took place in Athens on September 08, before the main ECCB conference (September 09-12). More details are available on the workshop page.

Summary

Logical models have long been used to explore the dynamical behaviours of regulatory networks. This workshop provides an overview of recent methodological developments and applications on the use of the logical formalism for the modelling of regulatory networks, covering the following main topics:

The workshop was split in two sessions: the first session is dedicated to recent methodological developments, the second session to biological case studies. Each of these sessions includes one introductory talk. It is further articulated with a tutorial organized by Tomas Helikar and Juilee Thakar on Sept 9th, 2018, thereby forming a two-days long SIG meeting devoted to logical modelling of cellular networks.

Schedule and slides

TimeSpeakerTopic
09h00A NiarakisWelcome and introduction to the workshop
C Chaouiya (chair)Session I: Methods and tools
09h10L TournierInterconnections of asynchronous Boolean networks with biological applications
09h40E GjergaAdvances in computational methods for the modelling of signalling networks
10h00L van der ZeeDeciphering yeast physiology by a multi‐scale framework integrating cell cycle and metabolism
10h20L PauleBoolean Networks: Beyond Generalized Asynchronicity
10h40Coffee/tea break
I Xenarios (chair)Session II: Methods and tools.
11h10L SunLogical modelling: Inferring structure from dynamics
11h30A NiarakisAutomated pipeline for the inference of Boolean models from molecular interaction maps
11h50C Réda & B WilczynskiAutomated Inference of Gene Regulatory Networks Using Explicit Regulatory Modules
12h10Lunch break
M Barberis (chair)Session III: Applications.
13h30I KochConcepts for functional analysis of signaling pathways in complex networks based on Manatee invariants
14h00C HernandezDynamical modelling of T cell co-inhibitory pathways to predict anti-tumour responses to checkpoint inhibitors
14h20J DorierIntegrative logical and experimental modeling: application to macrophage phenotype transition
14h40G SelvaggioLogical modelling and analysis of cell adhesion properties along Epithelial to Mesenchymal Transition
15h00Coffee/tea break
A Niarakis (chair)Session IV: Applications.
15h20FM KhanIdentification of Diagnostic and Therapeutic Markers in Tumor Invasion using Logic-based Modeling
15h40A MontagudPatient-specific prostate logical models allow clinical stratification of patients and personalized drug treatment
16h00L BenoodtDysregulated signaling networks implicated in vascular aging of HIV+ subjects investigated by logical modeling
16h20A SiegelLearning Boolean regulations of a metabolic network: a case-study
Conclusions, discussion & drinks

Participants