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Gallus GBrowse: a unified genomic database for the chicken
Carl J Schmidt1, Michael Romanov, Oliver Ryder
1Department of Animal and Food Sciences, University of Delaware, Newark, DE 19706, USA. schmidtc@udel.edu
Nucleic Acids Research
|October 16, 2007
Summary
Gallus GBrowse offers a comprehensive online resource for chicken genomic data, including genes, markers, and cross-species mappings. This valuable tool aids researchers in avian genomics studies.
Area of Science:
- Genomics
- Bioinformatics
- Avian Biology
Background:
- The chicken (Gallus gallus) genome is a key model for avian research.
- Access to integrated genomic data is crucial for advancing avian studies.
Purpose of the Study:
- To introduce Gallus GBrowse as a centralized online platform for chicken genomic information.
- To provide researchers with tools for exploring chicken and related avian genomes.
Main Methods:
- Development and deployment of the Gallus GBrowse web server.
- Integration of diverse genomic datasets including genes, markers, and ESTs.
- Implementation of a BLAT server for sequence matching.
Main Results:
- Gallus GBrowse provides access to predicted genes, Gene Ontology terms, and links to external databases (GEISHA, Unigene, Reactome).
- Genomic positions of chicken genetic markers, SNPs, and microarray probes are available.
- Mappings of DNA and EST sequences from turkey, condor, and zebra finch to the chicken genome are included.
- A BLAT server facilitates sequence similarity searches against the chicken genome.
Conclusions:
- Gallus GBrowse serves as a valuable, integrated resource for avian genomic research.
- The platform enhances accessibility to chicken genomic information and comparative genomics tools.
- It supports researchers investigating the chicken and other avian species.
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