obophenotype / obophenotype/uberon
Ensure relationships are complete for new tooth terms
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Description
In #1586 some new terms were added - these are all excellent terms!
however, there are some missing axioms. E.g. in
[Term]
id: UBERON:7500059
name: upper third secondary premolar tooth
def: "The premolar tooth of the upper jaw that is phylogenetically number 3." [https://orcid.org/0000-0003-2699-3066]
synonym: "P3" RELATED []
synonym: "upper third permanent premolar tooth" EXACT []
is_a: UBERON:0016944 ! upper premolar tooth
is_a: UBERON:0017270 ! secondary premolar tooth
created_by: https://orcid.org/0000-0003-2699-3066
I believe there should be a link to
[Term]
id: UBERON:7500056
name: premolar 3
def: "The premolar tooth of the upper or lower jaw that is phylogenetically number 3." [https://orcid.org/0000-0003-2699-3066]
synonym: "premolar tooth 3" EXACT []
synonym: "third premolar tooth" EXACT []
is_a: UBERON:0007120 ! premolar tooth
created_by: https://orcid.org/0000-0003-2699-3066
even better is if there is a logical definition. We'd expect logical definitions for all compositional terms. @nicolevasilevsky can we add yaml templates for teeth?
{upper, lower} {primary,secondary} {tooth}
with owl def:
{tooth} and part-of some {upper,lower} jaw region and part-of some {primary,secondary} dentition
@megbalk would you be able to make another PR adding these logical defs, as you are the expert here? Many thanks!
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reviewing the new tooth terms from #1586, especially UBERON:7500059 and UBERON:7500056, and compare their existing is_a relationships with the requested links. Then examine how compositional terms and logical definitions are represented in the ontology. Done means the relevant upper/lower and primary/secondary tooth terms have complete relationships and the requested logical definitions or templates.
Written by the indexing model from the issue text.
Assessment
- Domain
- data
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 25/100