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Updated: Jun 30, 2026
08:09
Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics
Published on: June 17, 2012
GabiPD: the GABI primary database--a plant integrative 'omics' database.
Diego Mauricio Riaño-Pachón1, Axel Nagel, Jost Neigenfind
1GabiPD team, Bioinformatics group, Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, Berlin, Germany.
Nucleic Acids Research
|September 25, 2008
Summary
The GABI Primary Database (GabiPD) integrates diverse plant
Area of Science:
- Plant genomics and systems biology.
- Bioinformatics and data integration.
Background:
- The German initiative for Genome Analysis of the Plant Biological System (GABI) generated extensive high-throughput data.
- A need existed for a centralized platform to manage and analyze heterogeneous plant biological data.
Purpose of the Study:
- To establish GabiPD as a comprehensive repository and analysis platform for GABI project data.
- To integrate diverse 'omics' data from multiple plant species for enhanced biological insight.
Main Methods:
- Development of the GabiPD database and the GreenCard concept for data retrieval.
- Integration of genomics, transcriptomics, proteomics, and metabolomics data.
- Visualization tools including interactive genetic maps, 2DE gels, and MapManWeb.
Main Results:
- GabiPD provides a unified platform for 14 plant species, incorporating various data types.
- GreenCards facilitate text-based retrieval, linking all data to a central Gene GreenCard.
- Integrated data allows visualization of ESTs, protein domains, gene structure, genetic maps, and expression profiles.
Conclusions:
- GabiPD enables the integration of complex biological data, facilitating new interpretations.
- The platform supports systems-level understanding of plant biology by connecting diverse datasets.
- GabiPD serves as a valuable resource for plant genomics and systems biology research.
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