Representing individual endochondral elements
Permanent URL: http://purl.obolibrary.org/obo/uberon/references/reference_0000009
Status: intermediate draft
Authors and contributors:
- Wasila Dahdul (author)
- Chris Mungall (author)
- Melissa Haendel (author)
Date: 2012
Document Type: ontology_design_pattern
Abstract
TODO Preamble:
Early draft to demonstrate markdown embedded in ontology.
Template
Classes representing individual endochondral elements should typically conform to the following hierarchy:
- X element
- X bone
- X cartilage
- X pre-cartilage condensation
Not all classes need be materialized in the ontology.
Where classes are materialized, the following axioms should be created:
- 'X cartilage condensation' SubClassOf develops_from some 'X pre-cartilage condensation'
- 'X bone' SubClassOf develops_from some 'X cartilage condensation'
The ontology should contain the axiom:
- 'endochondral bone' EquivalentTo bone and develops_from some 'cartilage condensation'
This means that there is no need for assertion under endochondral bone
Exceptions
- There need not be a 1:1 correspondence between a bone and it's cartilage precursor
Open questions
- Should there be a 4th subclass for elements whose end-state is cartilage; these are past the condensation stage
- Is develops_from appropriate? Depends how definition relations to cells
- Should classes for ossification centers be materialized? If so, how does this relate to the above
- Mixed endochondral/membrane bones
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