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MRD: a microsatellite repeats database for prokaryotic and eukaryotic genomes
Subbaya Subramanian1, Vamsi M Madgula, Ranjan George
1Centre for Cellular and Molecular Biology, Uppal Road, Hyderabad 500 007, India.
Genome Biology
|January 23, 2003
Summary
The Microsatellite Repeats Database (MRD) provides access to genome-wide microsatellite repeat information. It details repeat distribution and association with genomic features across various organisms.
Area of Science:
- Genomics
- Bioinformatics
- Computational Biology
Background:
- Microsatellites, simple tandemly repeated sequences (k=1-6), are crucial genomic elements.
- Understanding microsatellite distribution and function requires comprehensive databases.
Purpose of the Study:
- To develop and present the Microsatellite Repeats Database (MRD).
- To provide a resource for accessing and analyzing microsatellite information across diverse genomes.
Main Methods:
- MRD systematically stores microsatellite data (monomer to hexamer) for archaea, eubacteria, and eukaryotes.
- A web interface enables searching for specific repeats and their genomic associations.
- Data includes repeat abundance, distribution in coding/non-coding regions, and precise locations (UTR, exon, intron, intergenic).
Main Results:
- MRD offers detailed microsatellite information for publicly available genome sequences.
- The database highlights the association of microsatellites with genes and genomic regions.
- Users can explore the abundance and location of microsatellites within specific organisms.
Conclusions:
- MRD serves as a valuable, open-ended resource for microsatellite research.
- The database facilitates the study of microsatellite roles in genome organization and function.
- MRD is accessible online, supporting ongoing genomic research and future data integration.