CAGE: Compendium of arabdopsis gene expression

• Research unit: EU RFP
• Project number: 02.0346

Key words (English)

Biotechnology; Environmental Protection; Innovation; Technology Transfer; Life Sciences; Medicine; Health; Waste Management

Alternative project number (English)

EU project number: QLK3-CT-2002-02035

Research programs (English)

EU-programme: 5. Frame Research Programme - 1.1.3 The 'cell factory'

Short description (English)

See abstract

Abstract (English)

We will demonstrate the power of a concerted effort to build a functional genomics knowledge base for microarray based gene expression profiling. We established a consortium of European Arabidopsis functional genomics centres and bioinformatics partners that contribute expertise in transcription profiling. 2000 Arabidopsis samples will be analysed on the novel CATMA microarray format containing genespecific probes for all Arabidopsis genes, to build a prototype Compendium of expression profiles.

The data will be statistically analysed for significance and submitted to the Array Express database at the European Bioinformatics Institute(EBI). EBI will deliver specific CAGE ontology, and data submission pipelines. The Compendium data will be annotated and analysed for content and confirmation of gene function. The Compendium will further be maintained by EBI, and the CATMA arrays including protocols for data processing will be made publicly available.

References in databases (English)

Swiss Database: Euro-DB of the
State Secretariat for Education and Research
Hallwylstrasse 4
CH-3003 Berne, Switzerland
Tel. [phone]
Swiss Project-Number: 02.0346