Anatomical Entity Annotations from UBERON

A curated annotation table of anatomical entities sourced from the UBERON ontology. This dataset provides standard identifiers, human-readable names, and textual definitions for anatomical structures. It is used within the tKOI analysis pipeline to enrich network nodes of type "Anatomy" with biological context and ontology-based metadata.

Usage

anatomy_annotation

Format

A data frame with 15,668 rows and 3 columns:

identifier

A character string representing the UBERON ontology identifier (e.g., "UBERON:0000002").

name

The human-readable name of the anatomical structure (e.g., "uterine cervix").

definition

A character string describing the biological definition or functional role of the anatomical entity.

Source

UBERON Ontology http://uberon.github.io/

Details

The dataset supports the annotation and interpretation of graph nodes labeled as anatomical concepts in biological networks. It can be joined to results using the identifier column to enhance interpretability of enriched or prioritized nodes.

See also

run_tkoi, celltype_annotation, disease_annotation

Examples

data(anatomy_annotation)
head(anatomy_annotation)
#>        identifier                name
#>            <char>              <char>
#> 1: UBERON:0000000   processual entity
#> 2: UBERON:0000002      uterine cervix
#> 3: UBERON:0000003               naris
#> 4: UBERON:0000004                nose
#> 5: UBERON:0000005  chemosensory organ
#> 6: UBERON:0000006 islet of Langerhans
#>                                                                                                                                         definition
#>                                                                                                                                             <char>
#> 1: An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity.
#> 2:                                                              Lower, narrow portion of the uterus where it joins with the top end of the vagina.
#> 3:                                      Orifice of the olfactory system. The naris is the route by which odorants enter the olfactory system[MAH].
#> 4:     The olfactory organ of vertebrates, consisting of nares, olfactory epithelia and the structures and skeletal framework of the nasal cavity.
#> 5:                                                                                                                                                
#> 6:                                                             The clusters of hormone-producing cells that are scattered throughout the pancreas.