PhenoMiner: a quantitative phenotype database for the laboratory rat, Rattus norvegicus. Application in hypertension and renal disease. Database (Oxford) 2015;2015
Date
01/30/2015Pubmed ID
25632109Pubmed Central ID
PMC4309021DOI
10.1093/database/bau128Scopus ID
2-s2.0-84943179091 (requires institutional sign-in at Scopus site) 13 CitationsAbstract
Rats have been used extensively as animal models to study physiological and pathological processes involved in human diseases. Numerous rat strains have been selectively bred for certain biological traits related to specific medical interests. Recently, the Rat Genome Database (http://rgd.mcw.edu) has initiated the PhenoMiner project to integrate quantitative phenotype data from the PhysGen Program for Genomic Applications and the National BioResource Project in Japan as well as manual annotations from biomedical literature. PhenoMiner, the search engine for these integrated phenotype data, facilitates mining of data sets across studies by searching the database with a combination of terms from four different ontologies/vocabularies (Rat Strain Ontology, Clinical Measurement Ontology, Measurement Method Ontology and Experimental Condition Ontology). In this study, salt-induced hypertension was used as a model to retrieve blood pressure records of Brown Norway, Fawn-Hooded Hypertensive (FHH) and Dahl salt-sensitive (SS) rat strains. The records from these three strains served as a basis for comparing records from consomic/congenic/mutant offspring derived from them. We examined the cardiovascular and renal phenotypes of consomics derived from FHH and SS, and of SS congenics and mutants. The availability of quantitative records across laboratories in one database, such as these provided by PhenoMiner, can empower researchers to make the best use of publicly available data. Database URL: http://rgd.mcw.edu.
Author List
Wang SJ, Laulederkind SJ, Hayman GT, Petri V, Liu W, Smith JR, Nigam R, Dwinell MR, Shimoyama MAuthors
Melinda R. Dwinell PhD Associate Dean, Professor in the Physiology department at Medical College of WisconsinStanley J. Laulederkind Research Scientist II in the Physiology department at Medical College of Wisconsin
Shur-Jen Wang Research Scientist II in the Physiology department at Medical College of Wisconsin
MESH terms used to index this publication - Major topics in bold
Angiotensin AmideAnimals
Biological Ontologies
Data Mining
Databases, Genetic
Humans
Kidney Diseases
Rats
Software
