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Genome Database for Rosaceae (GDR)

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Abstract

The Genome Database for Rosaceae is a curated and integrated web-based relational database providing data mining tools and publicly available genomics, genetics and breeding data for Rosaceae (almond, apple, blackberry, cherry, peach, pear, plum, raspberry, rose, and strawberry), to aid basic, translational and applied research in this economically important family. GDR contains whole genome sequences of apple, peach and strawberry available to browse or download with a range of annotations including gene model predictions, aligned transcripts, repetitive elements, polymorphisms, mapped genetic markers, mapped NCBI Rosaceae genes, gene homologs, and association of InterPro protein domains, GO terms, and KEGG pathway terms. Annotated sequences can be queried using search interfaces and visualized using GBrowse or JBrowse. EST unigene sets are available for major genera and Pathway data is available through FragariaCyc, AppleCyc, and PeachCyc databases. Synteny among four sequenced genomes can be viewed using GBrowse_Syn. Markers, genetic maps, and extensively curated qualitative/Mendelian and quantitative trait loci are available as are phenotype and genotype data from breeding projects and genetic diversity projects. Search pages are available for genes, sequences, markers, trait loci, trait evaluation, genetic diversity, and publications . New search tools for breeders enable selection comparison and assistance with breeding decision-making. GDR also provides online analysis tools such as a NCBI BLAST and Batch BLAST, primer3 and a sequence retrieval tool.

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Researchers should cite this work as follows:

  • (2019), "Genome Database for Rosaceae (GDR)," https://sciencegateways.org/resources/genomedatabaseforrosaceaegdr.

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