Scientific Program

The Morphex project has been organised around three strongly related directions, organised around the three scientific work packages.

Collecting biological data, extracting model and problem characteristics and implementing first versions of models, tools and protocols.

o Data for Arabidopsis and sponges have been collected and placed in a knowledge base built by the project and easily accessible to all projects participants (morphopedia.org).
o A quantification of gene expression pattern tool has been implemented.
o A 2D cell-based model of gastrulation has been implemented. This model is currently extended in 3D.
o A connexionist model of gene regulation based on partial differential equations has been implemented.
o A model of growth and development of the adult sponge has been implemented.
o A geometrical model of cell has been proposed and implemented.
o An algorithm for inferring networks and model parameter has been implemented.

Proposing a definition of the meta-model, designing tools and protocols and provide results on simplified models.

o The meta-model has been defined.
o Protocols have been designed for measuring robustness of models to different kind of perturbations.
o Tools have been designed for finding hierarchies in models, reconstructing gene networks, inferring networks and model parameters and transforming gene networks into simpler networks having the same behaviour (network filtering).
o Protocols have been designed to extract gene networks from data for plants and animals.
o Cellular Potts model has been implemented to test the meta-model.

Providing a database for biological data and implement the modelling platform based on the meta-model characterisation.

o A technical survey on existing platform has been realised.
o An environment for development has been realised.
o The infrastructure of the biological database has been realised.
o A first prototype of the software architecture for the implementation of the meta-model has been conceived and implemented.
o A first prototype of the architecture for grid integration has been conceived and implemented.
o A framework for protocols design has been realised.

All the results obtained during the period have been diffused in the community, mainly by participation of researchers involved in the project to workshops and conferences and/or by publications of papers in journal or conference proceedings.

For more information, see "Events and Documents"

Contributors to this page: daRocha .
Page last modified on Thursday 25 March, 2010 12:03:45 CET by daRocha.

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