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GUDMAP Ontology | ATLAS-D2K Center

GUDMAP Ontology

A high-resolution ontology has been developed by members of the GUDMAP consortium to describe the subcompartments of the developing murine genitourinary tract.

This ontology incorporates what can be defined histologically and begins to encompass other structures and cell types already identified at the molecular level.

The GUDMAP ontology encompasses Theiler stage (TS) 17-27 of development as well as the sexually mature adult. It has been written as a partonomic, text-based, hierarchical ontology that, for the embryological stages, has been developed as a high-resolution expansion of the existing Edinburgh Mouse Atlas Project (EMAP) ontology. As of 2015, an “abstract” (i.e. non-stage-specific) representation of mouse developmental anatomy has since been developed and is referred to as EMAPA.

Other characteristics of this ontology:

  • Includes group terms for well-characterized structural and/or functional units comprising several sub-structures, such as the nephron and juxtaglomerular complex.
  • Assigns a unique identification number for each term.
  • Uses synonyms to improve the success of query searching and maintain wherever possible existing EMAP terms relating to this organ system.

Papers describing current ontology (2015)

Click the following links to access the papers describing the ontology:

An illustrated anatomical ontology of the developing mouse lower urogenital tract. Development. 2015 May 15;142(10):1893-908

A high-resolution anatomical ontology of the developing murine genitourinary tract. Gene Expr Patterns. 2007 Jun;7(6):680-99

EMAPA terms available in GUDMAP

View the complete set of EMAPA terms available in GUDMAP today:

Supplementary ontology documents

Updated February 2015.

Previous versions of the GUDMAP ontology

See the GUDMAP Ontology Archives page to view previous versions of the GUDMAP ontology.