FP6 - 512143 DIAMONDS - Dedicated Integration and Modelling of Novel Data and prior knowledge to enable Systems biology

Contacts
Website: www.sbcellcycle.org/index.htm




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Biotechnology : Life Science and Food Quality

Type of Project	STREP
Contract No	FP6 - 512143
Total Cost	3,150 KEuro
EC Contribution	2,500 KEuro
Start Date	21-12-2004
Duration	12 Months

Abstract

This project aims to demonstrate the power of a Systems Biology approach to study the regulatory network structure of the most fundamental biological process in eukaryotes: the cell cycle. An integrative approach will be applied to build a basic model of the cell cycle, in four different species including S. cervisiae (budding yeast), S. pombe (fission yeast), A. thaliana (weed, model plant) and human cells.

To do this, a Consortium is assembled of leaders in the fields of cell cycle biology, functional genomics technologies, database design and development, data analysis and integration technology, in addition to modelling and simulation approaches. The project combines a number of complementary data sets, toward an advanced mining and modelling environment designed to assist the biologist in building and amending hypotheses, and to help the investigator when designing new experiments to challenge these hypotheses.

By doing this simultaneously in widely different organisms we will ensure that the tools are generally applicable across species. By bringing together in the design phase biologists, bioinfomaticians, bio mathematicians and (commercial) software developers we will ensure that a user-friendly, intuitive data analysis environment is created. The main data streams generated de novo within the project concern transcript profiling and proteomics data (Y2H and TAP).These data will be complemented with information extracted through comparative genomics, and prior knowledge coming from literature mining (textmining toots).

The project will bring together a number of existing technologies to build a knowledge warehouse in a relational database designed to contain cell cycle regulatory network information, accessible through an intuitive user platform (GUI) with embedded modelling tools. This platform will enable both top-down and bottom-up hypothesis-driven research, and it will serve as a basis to develop more rigorous dynamical models.

Coordinator

Flanders Interuniversity Institute for Biotechnology, Dept. of Plant Systems Biology - Computational Biology Division/Molecualr Genetics Division, Belgium

Partners

• Consejo Superior de Investigaciones Cientificas, Spain
• Technical University of Denmark, Denmark
• Pubgene As, Norway
• Noray Bioinformatics, S.L., Spain
• The European Molecular Biology Laboratory, Germany
• Genome Research Limited, United Kingdom
• Université de la Méditerranée - Aix Marseille II, France
• The Hebrew University of Jerusalem, Israel
• University of Copenhagen, Denmark

Contacts

Contact

• Martin KUIPER / Flanders Interuniversity Institute for Biotechnology Dept. of Plant Systems Biology / BELGIUM