Affiliation:
1. The Rat Genome Database, Department of Physiology, Medical College of Wisconsin , Milwaukee, WI 53226 , USA
2. Clinical and Translational Science Institute, Medical College of Wisconsin , Milwaukee, WI 53226 , USA
3. Finance and Administration, Medical College of Wisconsin , Milwaukee, WI 53226 , USA
4. Department of Biomedical Engineering, Medical College of Wisconsin , Milwaukee, WI 53226 , USA
Abstract
Abstract
The Rat Genome Database (RGD, https://rgd.mcw.edu) has evolved from simply a resource for rat genetic markers, maps, and genes, by adding multiple genomic data types and extensive disease and phenotype annotations and developing tools to effectively mine, analyze, and visualize the available data, to empower investigators in their hypothesis-driven research. Leveraging its robust and flexible infrastructure, RGD has added data for human and eight other model organisms (mouse, 13-lined ground squirrel, chinchilla, naked mole-rat, dog, pig, African green monkey/vervet, and bonobo) besides rat to enhance its translational aspect. This article presents an overview of the database with the most recent additions to RGD’s genome, variant, and quantitative phenotype data. We also briefly introduce Virtual Comparative Map (VCMap), an updated tool that explores synteny between species as an improvement to RGD’s suite of tools, followed by a discussion regarding the refinements to the existing PhenoMiner tool that assists researchers in finding and comparing quantitative data across rat strains. Collectively, RGD focuses on providing a continuously improving, consistent, and high-quality data resource for researchers while advancing data reproducibility and fulfilling Findable, Accessible, Interoperable, and Reusable (FAIR) data principles.
Funder
National Heart, Lung, and Blood Institute
National Institutes of Health
National Human Genome Research Institute
Alliance of Genome Resources
Publisher
Oxford University Press (OUP)