GDR (Genome Database for Rosaceae): integrated web-database for Rosaceae genomics and genetics data

TitleGDR (Genome Database for Rosaceae): integrated web-database for Rosaceae genomics and genetics data
Publication TypeJournal Article
Year of Publication2008
AuthorsJung, S., M. Staton, T. Lee, A. Blenda, R. Svancara, A. Abbott, and D. Main
JournalNucleic Acids Res
Volume36
PaginationD1034-40
Date PublishedJan
ISBN Number1362-4962 (Electronic)03
Accession Number17932055
KeywordsUser-Computer Interface Systems Integration Software Rosaceae/*genetics Internet Genomics *Genome, Plant Genetic Markers Expressed Sequence Tags/chemistry *Databases, Genetic Chromosome Mapping
Abstract

The Genome Database for Rosaceae (GDR) is a central repository of curated and integrated genetics and genomics data of Rosaceae, an economically important family which includes apple, cherry, peach, pear, raspberry, rose and strawberry. GDR contains annotated databases of all publicly available Rosaceae ESTs, the genetically anchored peach physical map, Rosaceae genetic maps and comprehensively annotated markers and traits. The ESTs are assembled to produce unigene sets of each genus and the entire Rosaceae. Other annotations include putative function, microsatellites, open reading frames, single nucleotide polymorphisms, gene ontology terms and anchored map position where applicable. Most of the published Rosaceae genetic maps can be viewed and compared through CMap, the comparative map viewer. The peach physical map can be viewed using WebFPC/WebChrom, and also through our integrated GDR map viewer, which serves as a portal to the combined genetic, transcriptome and physical mapping information. ESTs, BACs, markers and traits can be queried by various categories and the search result sites are linked to the mapping visualization tools. GDR also provides online analysis tools such as a batch BLAST/FASTA server for the GDR datasets, a sequence assembly server and microsatellite and primer detection tools. GDR is available at http://www.rosaceae.org.

URLhttp://www.ncbi.nlm.nih.gov/pubmed/17932055