Fibroblasts are stromal

[dosumis]

Fixes #2281

[Caroline-99]

#gogoeditdiff

[Caroline-99]

#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/2024-09-17/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/2024-09-17/cl-simple.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-simple-pr.owl/cl-simple.owl

Ontology imports

Ontology annotations

fibroblast http://purl.obolibrary.org/obo/CL_0000057

Removed

• fibroblast SubClassOf develops from some mesenchymal stem cell

• fibroblast SubClassOf connective tissue cell

Added

• fibroblast SubClassOf stromal cell

fibroblast of connective tissue of glandular part of prostate http://purl.obolibrary.org/obo/CL_1000305

Added

• fibroblast of connective tissue of glandular part of prostate SubClassOf prostate stromal cell

fibroblast of connective tissue of nonglandular part of prostate http://purl.obolibrary.org/obo/CL_1000304

Added

• fibroblast of connective tissue of nonglandular part of prostate SubClassOf prostate stromal cell

fibroblast of connective tissue of prostate http://purl.obolibrary.org/obo/CL_1000299

Added

• fibroblast of connective tissue of prostate SubClassOf prostate stromal cell

fibroblast of outer membrane of prostatic capsule http://purl.obolibrary.org/obo/CL_1000300

Added

• fibroblast of outer membrane of prostatic capsule SubClassOf prostate stromal cell

fibroblast of subepithelial connective tissue of prostatic gland http://purl.obolibrary.org/obo/CL_1000301

Added

• fibroblast of subepithelial connective tissue of prostatic gland SubClassOf prostate stromal cell

marrow fibroblast http://purl.obolibrary.org/obo/CL_0002240

Removed

• marrow fibroblast SubClassOf bone marrow cell

Added

• marrow fibroblast SubClassOf stromal cell of bone marrow

ovarian fibroblast http://purl.obolibrary.org/obo/CL_2000063

Added

• ovarian fibroblast SubClassOf stromal cell of ovary

pancreatic stellate cell http://purl.obolibrary.org/obo/CL_0002410

Added

• pancreatic stellate cell SubClassOf stromal cell of pancreas

stromal cell http://purl.obolibrary.org/obo/CL_0000499

Removed

• stromal cell definition "A connective tissue cell of an organ found in the loose connective tissue. These are most often associated with the uterine mucosa and the ovary as well as the hematopoietic system and elsewhere."

  • database_cross_reference "GOC:tfm"

  • database_cross_reference "MESH:D017154"

Added

• stromal cell definition "A connective tissue cell of an organ found in the loose connective tissue."

  • database_cross_reference "GOC:tfm"

  • database_cross_reference "MESH:D017154"

thymic fibroblast type 1 http://purl.obolibrary.org/obo/CL_0009078

Added

• thymic fibroblast type 1 SubClassOf stromal cell of thymus

thymic fibroblast type 2 http://purl.obolibrary.org/obo/CL_0009079

Added

• thymic fibroblast type 2 SubClassOf stromal cell of thymus

[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

fibroblast http://purl.obolibrary.org/obo/CL_0000057

Added

• fibroblast SubClassOf stromal cell

stromal cell http://purl.obolibrary.org/obo/CL_0000499

Removed

• stromal cell definition "A connective tissue cell of an organ found in the loose connective tissue. These are most often associated with the uterine mucosa and the ovary as well as the hematopoietic system and elsewhere."

  • database_cross_reference "GOC:tfm"

  • database_cross_reference "MESH:D017154"

Added

• stromal cell definition "A connective tissue cell of an organ found in the loose connective tissue."

  • database_cross_reference "GOC:tfm"

  • database_cross_reference "MESH:D017154"

[dosumis]

Example check on inference with perplexity https://www.perplexity.ai/search/describe-what-is-known-about-f-Hd5CMxxbSaijeb1nfO0giQ