Section: Partnerships and Cooperations

European Initiatives

FP7 Projects

ERASysbio+ C5Sys European network.

This European program (url http://www.erasysbio.net/index.php?index=272 ) has begun in April 2010, with the title “Circadian and cell cycle clock systems in cancer”. Coordinated by F. Lévi (Villejuif) and D. Rand (Warwick), it studies both from a theoretical and from an experimental viewpoint the relationships between molecular circadian clocks and the cell division cycle, in cancer and in healthy tissues. It has been granted for 3 years. A postdoctoral fellow (F. Billy) has been hired at Inria-Bang until November 2012 on this funding, giving rise to various publications in 2012 [10] , [11] , [12] , [39] , [42] .

NOTOX

NOTOX will develop and establish a spectrum of systems biological tools including experimental and computational methods for (i) organotypic human cell cultures suitable for long term toxicity testing and (ii) the identification and analysis of pathways of toxicological relevance. NOTOX will initially use available human HepaRG and primary liver cells as well as mouse small intestine cultures in 3D systems to generate own experimental data to develop and validate predictive mathematical and bioinformatic models characterizing long term toxicity responses. Cellular activities will be monitored continuously by comprehensive analysis of released metabolites, peptides and proteins and by estimation of metabolic fluxes using 13C labelling techniques (fluxomics). At selected time points a part of the cells will be removed for in-depth structural (3D-optical and electron microscopy tomography), transcriptomic, epigenomic, metabolomic, proteomic and fluxomic characterisations. When applicable, cells derived from human stem cells (hESC or iPS) and available human organ simulating systems or even a multi-organ platform developed in SCREENTOX and HEMIBIO will be investigated using developed methods. Together with curated literature and genomic data these toxicological data will be organised in a toxicological database (cooperation with DETECTIVE, COSMOS and TOXBANK). Physiological data including metabolism of test compounds will be incorporated into large-scale computer models that are based on material balancing and kinetics. Various “-omics” data and 3D structural information from organotypic cultures will be integrated using correlative bioinformatic tools. These data also serve as a basis for large scale mathematical models. The overall objectives are to identify cellular and molecular signatures allowing prediction of long term toxicity, to design experimental systems for the identification of predictive endpoints and to integrate these into causal computer models.

Webpage: http://notox-sb.eu/fp7-cosmetics-europe/

EU-project PASSPORT

Participation in the European network PASSPORT on modelling liver regeneration after partial hepatectomy (url http://www.vph-noe.eu/vph-projects/74-eu-fp7-vph-projects/50-passport-strep )

ERC Starting Grant SKIPPERAD

The ERC Starting Grant allocated to M. Doumic-Jauffret in december 2012 will last for five years. The acronym standing for Simulation of the Kinetics and Inverse Problem for protein Polymerisation in Amyloid Diseases (Prion, Alzheimer's), its main goal is to contribute to the design of new methods for protein polymerisation simulation and prediction, a major issue in amyloid diseases.