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Nucleic Acids Res. 2015 Jan;43(Database issue):D743-50. doi: 10.1093/nar/gku1026. Epub 2014 Oct 29.

The Rat Genome Database 2015: genomic, phenotypic and environmental variations and disease.

Author information

1
Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee, WI 53226, USA Department of Surgery, Medical College of Wisconsin, Milwaukee, WI 53226, USA shimoyama@mcw.edu.
2
Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee, WI 53226, USA.
3
Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee, WI 53226, USA Department of Pediatrics, Medical College of Wisconsin, Milwaukee, WI 53226, USA.
4
Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee, WI 53226, USA Department of Physiology, Medical College of Wisconsin, Milwaukee, WI 53226, USA.

Abstract

The Rat Genome Database (RGD, http://rgd.mcw.edu) provides the most comprehensive data repository and informatics platform related to the laboratory rat, one of the most important model organisms for disease studies. RGD maintains and updates datasets for genomic elements such as genes, transcripts and increasingly in recent years, sequence variations, as well as map positions for multiple assemblies and sequence information. Functional annotations for genomic elements are curated from published literature, submitted by researchers and integrated from other public resources. Complementing the genomic data catalogs are those associated with phenotypes and disease, including strains, QTL and experimental phenotype measurements across hundreds of strains. Data are submitted by researchers, acquired through bulk data pipelines or curated from published literature. Innovative software tools provide users with an integrated platform to query, mine, display and analyze valuable genomic and phenomic datasets for discovery and enhancement of their own research. This update highlights recent developments that reflect an increasing focus on: (i) genomic variation, (ii) phenotypes and diseases, (iii) data related to the environment and experimental conditions and (iv) datasets and software tools that allow the user to explore and analyze the interactions among these and their impact on disease.

PMID:
25355511
PMCID:
PMC4383884
DOI:
10.1093/nar/gku1026
[Indexed for MEDLINE]
Free PMC Article

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