obophenotype / obophenotype/uberon
UBERON:0004122 genitourinary system and UBERON:0001008 renal system
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Description
Hi,
UBERON:0004122 genitourinary system has_part UBERON:0001008 renal system,
but UBERON:0001008 renal system is not part_of UBERON:0004122 genitourinary system.
This is causing issues for disease ontologies: in Mondo and EFO, 'disease of genitourinary system' and 'urinary system disease' are siblings instead of parent-child. Could you add the part_of axiom, please? Or are ther species in the Uberon space with a renal system but without a genitourinary one? If so, we may want to assert 'urinary system disease' subclass of 'disease of genitourinary system', because in the species where we typically look at diseases this is always true afaik.
Tagging @cmungall and @nicolevasilevsky because it'd be great if this could be fixed sooner rather than later please :-) and tagging @zoependlington for her reference. 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 UBERON:0004122 and UBERON:0001008 relationship assertions in the ontology and the issue's examples from Mondo and EFO. Determine whether the part_of axiom holds across relevant species; done means either adding the axiom or documenting a justified alternative for the disease classification problem.
Written by the indexing model from the issue text.
Assessment
- Domain
- data
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100