Fixes #2915 - biliary tuft cell

[Caroline-99]

Fixes #2915

• Added a new term with textual and logical defs, GO link, synonyms and references
• A new uberon term (extrahepatic biliary tree) will be created and linked to this term when available

[Caroline-99]

#gogoeditdiff

[github-actions]

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

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/cl/cl-base.owl
• Version IRI: http://purl.obolibrary.org/obo/cl/releases/2025-01-24/cl-base.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-base-master.owl/cl-base.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/cl/cl-base.owl
• Version IRI: http://purl.obolibrary.org/obo/cl/releases/2025-01-24/cl-base.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-base-pr.owl/cl-base.owl

Ontology imports

Ontology annotations

biliary tuft cell http://purl.obolibrary.org/obo/CL_4052033

Added

• biliary tuft cell date "2025-01-20T14:39:06Z"^^dateTime

• biliary tuft cell hasExactSynonym "gallbladder/extrahepatic bile duct tuft cell"

  • hasDbXref "PMID:35245089"

• biliary tuft cell label "biliary tuft cell"

• biliary tuft cell contributor 0009-0000-8480-9277

• biliary tuft cell IAO_0000115 "A tuft cell that is part of the extrahepatic biliary tree, including the gallbladder and extrahepatic bile ducts. It shares a core genetic program with intestinal tuft cells but has unique tissue-specific genes. Biliary tuft cell functions as a bile acid-sensitive regulator, suppressing inflammation and modulating microbiome-dependent neutrophil infiltration in biliary tissues. Unlike its intestinal counterparts, this cell decreases in number postnatally as bile acid production matures, with its abundance negatively regulated by bile acids."

  • hasDbXref "PMID:37863104"

  • hasDbXref "PMID:35245089"

• Class: biliary tuft cell

• biliary tuft cell SubClassOf RO_0002215 some GO_0050728

• biliary tuft cell SubClassOf brush 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

biliary tuft cell http://purl.obolibrary.org/obo/CL_4052033

Added

• biliary tuft cell date "2025-01-20T14:39:06Z"^^dateTime

• biliary tuft cell has_exact_synonym "gallbladder/extrahepatic bile duct tuft cell"

  • database_cross_reference "PMID:35245089"

• biliary tuft cell label "biliary tuft cell"

• biliary tuft cell contributor 0009-0000-8480-9277

• biliary tuft cell definition "A tuft cell that is part of the extrahepatic biliary tree, including the gallbladder and extrahepatic bile ducts. It shares a core genetic program with intestinal tuft cells but has unique tissue-specific genes. Biliary tuft cell functions as a bile acid-sensitive regulator, suppressing inflammation and modulating microbiome-dependent neutrophil infiltration in biliary tissues. Unlike its intestinal counterparts, this cell decreases in number postnatally as bile acid production matures, with its abundance negatively regulated by bile acids."

  • database_cross_reference "PMID:35245089"

  • database_cross_reference "PMID:37863104"

• Class: biliary tuft cell

• biliary tuft cell SubClassOf capable of some negative regulation of inflammatory response

• biliary tuft cell SubClassOf brush cell

[JABelfiore]

#gogoeditdiff