Submission 16

Submission 16

The Rat Genome Database (RGD) serves to provide important datasets and software tools to a diverse community of rat and non-rat researchers worldwide. Many of these researchers specialize in disease; in order to better serve these researchers, RGD frequently engages in curation of disease category-centered portals. The goal of these specialized portals is to identify molecular mechanisms of disease, genetic associations, biomarkers, and therapeutic targets within the confines of a specific disease. 
To identify genes for curation in a selected disease category, a subset of high-level Medical Subject Headings (MeSH) disease terms, adjectives and sub-types of relevant disease terms not present in MeSH are selected. Multiple gene/disease databases are queried with the assembled terms. The resulting gene lists are then prioritized by the number of reference hits across databases. The resulting ranked genes can be queried in OntoMate, an ontology-tagging, concept-based literature search engine. Gene-disease relationships for rat, human, and mouse are annotated with various types of evidence. Primary annotations are made to genes of one of the three species, with the evidence code Inferred from Sequence or Structural Similarity (ISS) annotated to the other two orthologs. Computational gene-disease annotations are also imported from the National Center of Biotechnology Information’s (NCBI) ClinVar database, Online Mendelian Inheritance of Man (OMIM), the Comparative Toxicogenomics Database (CTD) and the National Institute of Health’s Genetic Association Database (GAD).
The portals are an integrated resource for information on genes, qualitative trait loci (QTLs) and strains associated with a variety of disease conditions. Additionally, disease-related pathways, phenotypes, biological processes and strains are also accessible from the portals. These portals continue to serve as research resources for disease-centered researchers and rat researchers alike.