Addresses #2015 Update definitions for bladder urothelial cell types

[ghost]

Addresses #2015 Update definitions for bladder urothelial cell types

[ghost]

#gogoeditdiff

[github-actions]

Here's a diff of how these changes impact the classified ontology (on -simple file):

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/cl/cl-simple.owl
• Version IRI: http://purl.obolibrary.org/obo/cl/releases/2023-06-09/cl-simple.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-simple-master.owl/cl-simple.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/cl/cl-simple.owl
• Version IRI: http://purl.obolibrary.org/obo/cl/releases/2023-06-09/cl-simple.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-simple-pr.owl/cl-simple.owl

Ontology imports

Ontology annotations

bladder urothelial cell http://purl.obolibrary.org/obo/CL_1001428

Removed

• bladder urothelial cell SubClassOf bladder cell

  • is_inferred "true"

• bladder urothelial cell SubClassOf urothelial cell

  • is_inferred "true"

Added

• bladder urothelial cell comment "A urothellial cell that is part of the urothelium of the urinary bladder."

  • database_cross_reference "doi:10.1038/s41385-022-00565-0"

• bladder urothelial cell SubClassOf urothelial cell

• bladder urothelial cell SubClassOf bladder cell

urothelial cell of trigone of urinary bladder http://purl.obolibrary.org/obo/CL_1000442

Removed

• urothelial cell of trigone of urinary bladder SubClassOf bladder cell

• urothelial cell of trigone of urinary bladder SubClassOf urothelial cell

  • is_inferred "true"

Added

• urothelial cell of trigone of urinary bladder SubClassOf bladder urothelial cell

[github-actions]

Here's a diff of your edit file (unreasoned)

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/cl.owl
• Version IRI: None
• Loaded from: file:/__w/cell-ontology/cell-ontology/master/src/ontology/cl-edit.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/cl.owl
• Version IRI: None
• Loaded from: file:/__w/cell-ontology/cell-ontology/branch/src/ontology/cl-edit.owl

Ontology imports

Ontology annotations

bladder urothelial cell http://purl.obolibrary.org/obo/CL_1001428

Removed

• bladder urothelial cell SubClassOf part_of some urinary bladder urothelium

• bladder urothelial cell SubClassOf bladder cell

  • is_inferred "true"

• bladder urothelial cell SubClassOf urothelial cell

  • is_inferred "true"

Added

• bladder urothelial cell comment "A urothellial cell that is part of the urothelium of the urinary bladder."
  • database_cross_reference "doi:10.1038/s41385-022-00565-0"

urothelial cell of trigone of urinary bladder http://purl.obolibrary.org/obo/CL_1000442

Removed

• urothelial cell of trigone of urinary bladder EquivalentTo urothelial cell and (part_of some trigone of urinary bladder)

• urothelial cell of trigone of urinary bladder SubClassOf urothelial cell

  • is_inferred "true"

Added

• urothelial cell of trigone of urinary bladder EquivalentTo urothelial cell and (part_of some
  (urothelium and (part_of some trigone of urinary bladder)))

[dosumis]

Please see comments on ticket.

[ghost]

#gogoeditdiff

[gouttegd]

Everything looks fine for CL:1000442.

Incorrect annotation property (rdfs:comment instead of IAO:0000115) and typo for CL:1001428.

[gouttegd]

Why rdfs:comment? This is a definition, should be IAO:0000115.

Also urothellial -> urothelial.

[ghost]

Thank you for spotting both.
I've noticed Protégé will sometimes default to rdfs:comment. Thank you for catching.

[gouttegd]

And coming back to an earlier discussion: In this case, should it be “An urothelial cell” or “A urothelial cell”? (Genuine question; I’d be inclined to say “an”, but I’ll happily yield to native English speakers on that point.)

[ghost]

In this instance it should be "A" since "urothelial" starts with a consonant sound, like "urine" or "university".