Symbol: This is the official symbol assigned to this strain according to the strain nomenclature guidelines. This is a combination of strain and substrain designations for inbred BN strain maintained at the Medical College of Wisconsin (Mcwi is the registered ILAR code for Medical College of Wisconsin).

Strain: The official strain symbol.

Substrain: The official substrain symbol – this can be a collection of ILAR lab codes defining the history of this particular strain. It can also be found in the pulldown section below with links to the strain report pages.

Full Name: If the strain has a text name then it is displayed here; this is not visible if no name is associated to the strain, as in this example.

RGD ID: This is the registered unique identifier associated with this strain. The symbol for the rat might be changing but the identifier stays the same.

Citation ID: This is the research resource identifier recommended from the “RRID Portal” https://scicrunch.org/resources. We recommend that you cite this ID (RRID:RGD_61498) in your publication so that the animal used in the study can be traced by readers.

Ontology ID: The identification number of the strain ontology term assigned by RGD, linked to the term in the ontology browser. In the strain ontology, rat strains are organized in a hierarchical fashion based on the type of strain and the way they were developed.

Alleles: The genetic markers associated with the strain (none in this example).

Also known as: Old symbols and synonyms that were used for the strain. If a strain is renamed to comply with the guidelines of strain nomenclature, then the symbol used by researchers is mentioned here.

Type: Description of the category of the strain – inbred, congenic, consomic, outbred, etc.

Source: The name of the lab, department, university or company where this particular strain can be obtained.

Origin: A brief description of the method used to generate this strain.

Disease Annotations

RGD Manual Disease Annotations: These annotations represent disease to strain associations manually curated from the biomedical literature. The terms come from a combined Disease Ontology with customerized RGD disease terms. Disease annotations are followed by the evidence codes IAGP, IDA or IMP. The references from which these annotations were derived are listed by their identifiers created at RGD.

Phenotype Annotations

These annotations represent the association of strains with particular mammalian phenotypes.  The terms come from the Mammalian Phenotype Ontology developed at MGI (http://www.informatics.jax.org/, Genome Biol. 6(1):R7. Epub 2004 Dec 15.) The terms are supported by the same group of evidence codes as used for disease vocabulary annotations.

Phenotype Values via Phenominer

This is a list of all the Phenotypes that are measured using this strain. These are retrieved from the RGD PhenoMiner tool, which houses quantitative phenotype data. Under Annotation Summary View, a click on ‘View chart’ goes to the PhenoMiner tool displaying the details of the phenotypes.  ‘Download data table’ opens a downloadable version of this data as an Excel spreadsheet and ‘View expanded data table’ gives an enhanced version of this data. Under ‘Annotation Detail View’ there is a table listing the strain, the measurements, experimental conditions and measurements used to annotate the strain.

References

A list of all references that have been used by the RGD curation team for annotating this strain. These link out to the RGD Reference report pages which have the abstracts of the articles. There is a link to PubMed from this page.

Strain QTL Data

This is a  list of QTLs that have been identified using this strain, and are annotated to it. The QTLs are linked to the RGD QTL report pages.

Damaging Variants

These are damaging variant reports from the strain. Clicking on the number brings up the details of the variants.

 

Position Markers

This section is visible only in the congenic strains that have SSLPs/genes/ESTs used as markers to define the introgressed segment.