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obophenotype / cell-ontology

An ontology of cell types
https://obophenotype.github.io/cell-ontology/
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separating_gut_meosthelial_from_gut_lining #2674

Open dosumis opened 1 month ago

dosumis commented 1 month ago
dosumis commented 1 month ago

gogoeditdiff

github-actions[bot] commented 1 month ago
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/2024-11-21/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/2024-11-21/cl-base.owl` - Loaded from: `file:/__w/cell-ontology/cell-ontology/src/ontology/cl-base-pr.owl/cl-base.owl` ### Ontology imports ### Ontology annotations ### PP cell of intestine `http://purl.obolibrary.org/obo/CL_0002680` #### Removed - [PP cell of intestine](http://purl.obolibrary.org/obo/CL_0002680) EquivalentTo [PP cell](http://purl.obolibrary.org/obo/CL_0000696) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0000160](http://purl.obolibrary.org/obo/UBERON_0000160)) #### Added - [PP cell of intestine](http://purl.obolibrary.org/obo/CL_0002680) EquivalentTo [PP cell](http://purl.obolibrary.org/obo/CL_0000696) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001277](http://purl.obolibrary.org/obo/UBERON_0001277)) ### UBERON_0001206 `http://purl.obolibrary.org/obo/UBERON_0001206` #### Added - Class: [UBERON_0001206](http://purl.obolibrary.org/obo/UBERON_0001206) ### UBERON_0001242 `http://purl.obolibrary.org/obo/UBERON_0001242` #### Removed - Class: [UBERON_0001242](http://purl.obolibrary.org/obo/UBERON_0001242) ### UBERON_0003335 `http://purl.obolibrary.org/obo/UBERON_0003335` #### Added - Class: [UBERON_0003335](http://purl.obolibrary.org/obo/UBERON_0003335) ### UBERON_0012498 `http://purl.obolibrary.org/obo/UBERON_0012498` #### Added - Class: [UBERON_0012498](http://purl.obolibrary.org/obo/UBERON_0012498) ### UBERON_0015716 `http://purl.obolibrary.org/obo/UBERON_0015716` #### Added - Class: [UBERON_0015716](http://purl.obolibrary.org/obo/UBERON_0015716) ### enteroendocrine cell of anorectum `http://purl.obolibrary.org/obo/CL_0009063` #### Added - [enteroendocrine cell of anorectum](http://purl.obolibrary.org/obo/CL_0009063) SubClassOf [BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001278](http://purl.obolibrary.org/obo/UBERON_0001278) ### epithelial cell of anal column `http://purl.obolibrary.org/obo/CL_0002634` #### Removed - [epithelial cell of anal column](http://purl.obolibrary.org/obo/CL_0002634) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0009882](http://purl.obolibrary.org/obo/UBERON_0009882)) #### Added - [epithelial cell of anal column](http://purl.obolibrary.org/obo/CL_0002634) EquivalentTo [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0009882](http://purl.obolibrary.org/obo/UBERON_0009882)) ### epithelial cell of appendix `http://purl.obolibrary.org/obo/CL_1000405` #### Removed - [epithelial cell of appendix](http://purl.obolibrary.org/obo/CL_1000405) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001154](http://purl.obolibrary.org/obo/UBERON_0001154)) #### Added - [epithelial cell of appendix](http://purl.obolibrary.org/obo/CL_1000405) EquivalentTo [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001154](http://purl.obolibrary.org/obo/UBERON_0001154)) ### intestinal enteroendocrine cell `http://purl.obolibrary.org/obo/CL_1001516` #### Removed - [intestinal enteroendocrine cell](http://purl.obolibrary.org/obo/CL_1001516) EquivalentTo [enteroendocrine cell](http://purl.obolibrary.org/obo/CL_0000164) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001242](http://purl.obolibrary.org/obo/UBERON_0001242)) #### Added - [intestinal enteroendocrine cell](http://purl.obolibrary.org/obo/CL_1001516) EquivalentTo [enteroendocrine cell](http://purl.obolibrary.org/obo/CL_0000164) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001277](http://purl.obolibrary.org/obo/UBERON_0001277)) ### intestinal epithelial cell `http://purl.obolibrary.org/obo/CL_0002563` #### Removed - [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0000160](http://purl.obolibrary.org/obo/UBERON_0000160)) #### Added - [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001277](http://purl.obolibrary.org/obo/UBERON_0001277)) ### keratinized epithelial cell of the anal canal `http://purl.obolibrary.org/obo/CL_0002637` #### Removed - [keratinized epithelial cell of the anal canal](http://purl.obolibrary.org/obo/CL_0002637) SubClassOf [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) ### mesothelial cell of appendix `http://purl.obolibrary.org/obo/CL_0009029` #### Removed - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001154](http://purl.obolibrary.org/obo/UBERON_0001154)) - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) SubClassOf [epithelial cell of appendix](http://purl.obolibrary.org/obo/CL_1000405) #### Added - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0012498](http://purl.obolibrary.org/obo/UBERON_0012498)) - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) SubClassOf [BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0012498](http://purl.obolibrary.org/obo/UBERON_0012498) - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) SubClassOf [epithelial cell of alimentary canal](http://purl.obolibrary.org/obo/CL_0002251) ### mesothelial cell of colon `http://purl.obolibrary.org/obo/CL_0009025` #### Removed - [mesothelial cell of colon](http://purl.obolibrary.org/obo/CL_0009025) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001155](http://purl.obolibrary.org/obo/UBERON_0001155)) #### Added - [mesothelial cell of colon](http://purl.obolibrary.org/obo/CL_0009025) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0003335](http://purl.obolibrary.org/obo/UBERON_0003335)) - [mesothelial cell of colon](http://purl.obolibrary.org/obo/CL_0009025) SubClassOf [BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0003335](http://purl.obolibrary.org/obo/UBERON_0003335) ### mesothelial cell of small intestine `http://purl.obolibrary.org/obo/CL_0009024` #### Removed - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0002108](http://purl.obolibrary.org/obo/UBERON_0002108)) - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) SubClassOf [epithelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0002254) #### Added - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001206](http://purl.obolibrary.org/obo/UBERON_0001206)) - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) SubClassOf [BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0001206](http://purl.obolibrary.org/obo/UBERON_0001206) - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) SubClassOf [epithelial cell of alimentary canal](http://purl.obolibrary.org/obo/CL_0002251) ### stratified squamous epithelial cell of anal canal `http://purl.obolibrary.org/obo/CL_0009066` #### Removed - [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) EquivalentTo [stratified squamous epithelial cell](http://purl.obolibrary.org/obo/CL_0000240) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0000159](http://purl.obolibrary.org/obo/UBERON_0000159)) - [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) SubClassOf [BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0000159](http://purl.obolibrary.org/obo/UBERON_0000159) #### Added - [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) EquivalentTo [stratified squamous epithelial cell](http://purl.obolibrary.org/obo/CL_0000240) and ([BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0015716](http://purl.obolibrary.org/obo/UBERON_0015716)) - [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) SubClassOf [BFO_0000050](http://purl.obolibrary.org/obo/BFO_0000050) some [UBERON_0015716](http://purl.obolibrary.org/obo/UBERON_0015716)
github-actions[bot] commented 1 month ago
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 ### PP cell of intestine `http://purl.obolibrary.org/obo/CL_0002680` #### Removed - [PP cell of intestine](http://purl.obolibrary.org/obo/CL_0002680) EquivalentTo [PP cell](http://purl.obolibrary.org/obo/CL_0000696) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestine](http://purl.obolibrary.org/obo/UBERON_0000160)) #### Added - [PP cell of intestine](http://purl.obolibrary.org/obo/CL_0002680) EquivalentTo [PP cell](http://purl.obolibrary.org/obo/CL_0000696) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestinal epithelium](http://purl.obolibrary.org/obo/UBERON_0001277)) ### enterocyte `http://purl.obolibrary.org/obo/CL_0000584` #### Removed - [enterocyte](http://purl.obolibrary.org/obo/CL_0000584) SubClassOf [brush border epithelial cell](http://purl.obolibrary.org/obo/CL_0000239) #### Added - [enterocyte](http://purl.obolibrary.org/obo/CL_0000584) SubClassOf [has part](http://purl.obolibrary.org/obo/BFO_0000051) some [brush border](http://purl.obolibrary.org/obo/GO_0005903) ### enteroendocrine cell of anorectum `http://purl.obolibrary.org/obo/CL_0009063` #### Added - [enteroendocrine cell of anorectum](http://purl.obolibrary.org/obo/CL_0009063) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [epithelium of large intestine](http://purl.obolibrary.org/obo/UBERON_0001278) ### epithelial cell of anal column `http://purl.obolibrary.org/obo/CL_0002634` #### Removed - [epithelial cell of anal column](http://purl.obolibrary.org/obo/CL_0002634) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [anal column](http://purl.obolibrary.org/obo/UBERON_0009882)) #### Added - [epithelial cell of anal column](http://purl.obolibrary.org/obo/CL_0002634) EquivalentTo [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [anal column](http://purl.obolibrary.org/obo/UBERON_0009882)) ### epithelial cell of appendix `http://purl.obolibrary.org/obo/CL_1000405` #### Removed - [epithelial cell of appendix](http://purl.obolibrary.org/obo/CL_1000405) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154)) #### Added - [epithelial cell of appendix](http://purl.obolibrary.org/obo/CL_1000405) EquivalentTo [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154)) ### glandular cell of the large intestine `http://purl.obolibrary.org/obo/CL_0002658` #### Added - [glandular cell of the large intestine](http://purl.obolibrary.org/obo/CL_0002658) SubClassOf [epithelial cell of large intestine](http://purl.obolibrary.org/obo/CL_0002253) ### intestinal enteroendocrine cell `http://purl.obolibrary.org/obo/CL_1001516` #### Removed - [intestinal enteroendocrine cell](http://purl.obolibrary.org/obo/CL_1001516) EquivalentTo [enteroendocrine cell](http://purl.obolibrary.org/obo/CL_0000164) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestinal mucosa](http://purl.obolibrary.org/obo/UBERON_0001242)) #### Added - [intestinal enteroendocrine cell](http://purl.obolibrary.org/obo/CL_1001516) EquivalentTo [enteroendocrine cell](http://purl.obolibrary.org/obo/CL_0000164) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestinal epithelium](http://purl.obolibrary.org/obo/UBERON_0001277)) ### intestinal epithelial cell `http://purl.obolibrary.org/obo/CL_0002563` #### Removed - [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestine](http://purl.obolibrary.org/obo/UBERON_0000160)) - [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) SubClassOf [part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestinal epithelium](http://purl.obolibrary.org/obo/UBERON_0001277) #### Added - [intestinal epithelial cell](http://purl.obolibrary.org/obo/CL_0002563) EquivalentTo [epithelial cell](http://purl.obolibrary.org/obo/CL_0000066) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [intestinal epithelium](http://purl.obolibrary.org/obo/UBERON_0001277)) ### mesothelial cell of appendix `http://purl.obolibrary.org/obo/CL_0009029` #### Removed - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [vermiform appendix](http://purl.obolibrary.org/obo/UBERON_0001154)) #### Added - [mesothelial cell of appendix](http://purl.obolibrary.org/obo/CL_0009029) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [serosa of appendix](http://purl.obolibrary.org/obo/UBERON_0012498)) ### mesothelial cell of colon `http://purl.obolibrary.org/obo/CL_0009025` #### Removed - [mesothelial cell of colon](http://purl.obolibrary.org/obo/CL_0009025) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [colon](http://purl.obolibrary.org/obo/UBERON_0001155)) #### Added - [mesothelial cell of colon](http://purl.obolibrary.org/obo/CL_0009025) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [serosa of colon](http://purl.obolibrary.org/obo/UBERON_0003335)) ### mesothelial cell of small intestine `http://purl.obolibrary.org/obo/CL_0009024` #### Removed - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [small intestine](http://purl.obolibrary.org/obo/UBERON_0002108)) #### Added - [mesothelial cell of small intestine](http://purl.obolibrary.org/obo/CL_0009024) EquivalentTo [mesothelial cell](http://purl.obolibrary.org/obo/CL_0000077) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [serosa of small intestine](http://purl.obolibrary.org/obo/UBERON_0001206)) ### regulation of nitric oxide biosynthetic process `http://purl.obolibrary.org/obo/GO_0045428` #### Added - Class: [regulation of nitric oxide biosynthetic process](http://purl.obolibrary.org/obo/GO_0045428) ### stratified squamous epithelial cell of anal canal `http://purl.obolibrary.org/obo/CL_0009066` #### Removed - [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) EquivalentTo [stratified squamous epithelial cell](http://purl.obolibrary.org/obo/CL_0000240) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [anal canal](http://purl.obolibrary.org/obo/UBERON_0000159)) #### Added - [stratified squamous epithelial cell of anal canal](http://purl.obolibrary.org/obo/CL_0009066) EquivalentTo [stratified squamous epithelial cell](http://purl.obolibrary.org/obo/CL_0000240) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [anal canal epithelium](http://purl.obolibrary.org/obo/UBERON_0015716))
dosumis commented 1 month ago

Diffs are a bit odd. Maybe some edits bleeding in from Master?

dosumis commented 3 weeks ago

Diffs now good.

Caroline-99 commented 1 week ago

gogoeditdiff

Caroline-99 commented 5 days ago

gogoeditdiff