Plant & Animal Genomes XI Conference Plant & Animal Genomes XI ConferenceJanuary 11-15, 2003
Town & Country Convention Center
San Diego, CA
Bioinformatics: Software
Computer: Demo Only
The efforts of the International Rice Genome Sequence Project have made available a large amount of annotated rice genomic sequence that has been anchored to a rice genetic map. This information has allowed us to exploit the syntenic relationship that exists between rice and wheat to construct a virtual map of the wheat genome.
The system developed here uses the annotated rice sequence data available from Genbank, the rice physical map at the Arizona Genomics Institute and the EST mapping data from the NSF Wheat EST Genomics Project to construct a rough virtual physical map of the Triticum aestivum genome. Rice homologs of the mapped wheat ESTs are identified using BLAST analysis and the neighbouring genes in rice are brought into the wheat physical map. Criteria such as the strength of the BLAST link between the two ORFs and the chromosome regions containing the match allow the researcher to make an informed decision on the validity of the map presented. The system is accessed via a web browser and is presented as DHTML and SVG created from ‘live’ data. It aims to provide an intuitive interface for exploring this large amount of information.