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obophenotype / cell-ontology

An ontology of cell types
https://obophenotype.github.io/cell-ontology/
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Move terms under [peripheral nervous system neuron] #2665

Closed AvolaAmg closed 4 weeks ago

AvolaAmg commented 1 month ago

Fixes #2656

AvolaAmg 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 -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/2024-10-28/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/2024-10-28/cl-simple.owl` - Loaded from: `file:/__w/cell-ontology/cell-ontology/src/ontology/cl-simple-pr.owl/cl-simple.owl` ### Ontology imports ### Ontology annotations ### Rohon-Beard neuron `http://purl.obolibrary.org/obo/CL_0000247` #### Removed - [Rohon-Beard neuron](http://purl.obolibrary.org/obo/CL_0000247) SubClassOf [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) - [Rohon-Beard neuron](http://purl.obolibrary.org/obo/CL_0000247) SubClassOf [neuronal receptor cell](http://purl.obolibrary.org/obo/CL_0000006) ### cardiac neuron `http://purl.obolibrary.org/obo/CL_0010022` #### Removed - [cardiac neuron](http://purl.obolibrary.org/obo/CL_0010022) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [cardiac neuron](http://purl.obolibrary.org/obo/CL_0010022) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### polymodal neuron `http://purl.obolibrary.org/obo/CL_0000102` #### Removed - [polymodal neuron](http://purl.obolibrary.org/obo/CL_0000102) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [polymodal neuron](http://purl.obolibrary.org/obo/CL_0000102) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### pseudounipolar neuron `http://purl.obolibrary.org/obo/CL_0000105` #### Removed - [pseudounipolar neuron](http://purl.obolibrary.org/obo/CL_0000105) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [pseudounipolar neuron](http://purl.obolibrary.org/obo/CL_0000105) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### retinal bipolar neuron `http://purl.obolibrary.org/obo/CL_0000748` #### Removed - [retinal bipolar neuron](http://purl.obolibrary.org/obo/CL_0000748) SubClassOf [bipolar neuron](http://purl.obolibrary.org/obo/CL_0000103) ### sensory neuron of dorsal root ganglion `http://purl.obolibrary.org/obo/CL_1001451` #### Added - [sensory neuron of dorsal root ganglion](http://purl.obolibrary.org/obo/CL_1001451) SubClassOf [peripheral sensory neuron](http://purl.obolibrary.org/obo/CL_3000004) ### sensory processing neuron `http://purl.obolibrary.org/obo/CL_0000379` #### Removed - [sensory processing neuron](http://purl.obolibrary.org/obo/CL_0000379) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [sensory processing neuron](http://purl.obolibrary.org/obo/CL_0000379) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### somatosensory neuron `http://purl.obolibrary.org/obo/CL_4023168` #### Removed - [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### spiral ganglion neuron `http://purl.obolibrary.org/obo/CL_0011113` #### Removed - [spiral ganglion neuron](http://purl.obolibrary.org/obo/CL_0011113) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [spiral ganglion neuron](http://purl.obolibrary.org/obo/CL_0011113) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### trigeminal sensory neuron `http://purl.obolibrary.org/obo/CL_4023170` #### Removed - [trigeminal sensory neuron](http://purl.obolibrary.org/obo/CL_4023170) SubClassOf [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) ### unipolar neuron `http://purl.obolibrary.org/obo/CL_0000106` #### Removed - [unipolar neuron](http://purl.obolibrary.org/obo/CL_0000106) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [unipolar neuron](http://purl.obolibrary.org/obo/CL_0000106) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032)
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 ### Rohon-Beard neuron `http://purl.obolibrary.org/obo/CL_0000247` #### Removed - [Rohon-Beard neuron](http://purl.obolibrary.org/obo/CL_0000247) SubClassOf [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) ### cardiac neuron `http://purl.obolibrary.org/obo/CL_0010022` #### Removed - [cardiac neuron](http://purl.obolibrary.org/obo/CL_0010022) EquivalentTo [neuron](http://purl.obolibrary.org/obo/CL_0000540) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [heart](http://purl.obolibrary.org/obo/UBERON_0000948)) #### Added - [cardiac neuron](http://purl.obolibrary.org/obo/CL_0010022) EquivalentTo [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [heart](http://purl.obolibrary.org/obo/UBERON_0000948)) ### polymodal neuron `http://purl.obolibrary.org/obo/CL_0000102` #### Removed - [polymodal neuron](http://purl.obolibrary.org/obo/CL_0000102) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [polymodal neuron](http://purl.obolibrary.org/obo/CL_0000102) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### pseudounipolar neuron `http://purl.obolibrary.org/obo/CL_0000105` #### Removed - [pseudounipolar neuron](http://purl.obolibrary.org/obo/CL_0000105) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [pseudounipolar neuron](http://purl.obolibrary.org/obo/CL_0000105) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) ### retinal bipolar neuron `http://purl.obolibrary.org/obo/CL_0000748` #### Removed - [retinal bipolar neuron](http://purl.obolibrary.org/obo/CL_0000748) EquivalentTo [bipolar neuron](http://purl.obolibrary.org/obo/CL_0000103) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [inner nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001791)) #### Added - [retinal bipolar neuron](http://purl.obolibrary.org/obo/CL_0000748) EquivalentTo [neuron](http://purl.obolibrary.org/obo/CL_0000540) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [inner nuclear layer of retina](http://purl.obolibrary.org/obo/UBERON_0001791)) ### sensory processing neuron `http://purl.obolibrary.org/obo/CL_0000379` #### Removed - [sensory processing neuron](http://purl.obolibrary.org/obo/CL_0000379) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [sensory processing neuron](http://purl.obolibrary.org/obo/CL_0000379) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010)) ### somatosensory neuron `http://purl.obolibrary.org/obo/CL_4023168` #### Removed - [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) EquivalentTo [neuron](http://purl.obolibrary.org/obo/CL_0000540) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [somatosensory system](http://purl.obolibrary.org/obo/UBERON_0003942)) #### Added - [somatosensory neuron](http://purl.obolibrary.org/obo/CL_4023168) EquivalentTo [neuron](http://purl.obolibrary.org/obo/CL_0000540) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some [somatosensory system](http://purl.obolibrary.org/obo/UBERON_0003942)) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [peripheral nervous system](http://purl.obolibrary.org/obo/UBERON_0000010)) ### spiral ganglion neuron `http://purl.obolibrary.org/obo/CL_0011113` #### Removed - [spiral ganglion neuron](http://purl.obolibrary.org/obo/CL_0011113) EquivalentTo [neuron](http://purl.obolibrary.org/obo/CL_0000540) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [cochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0000395)) #### Added - [spiral ganglion neuron](http://purl.obolibrary.org/obo/CL_0011113) EquivalentTo [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032) and ([has soma location](http://purl.obolibrary.org/obo/RO_0002100) some [cochlear ganglion](http://purl.obolibrary.org/obo/UBERON_0000395)) ### triggering receptor expressed on myeloid cells 2 `http://purl.obolibrary.org/obo/PR_000016626` #### Added - Class: [triggering receptor expressed on myeloid cells 2](http://purl.obolibrary.org/obo/PR_000016626) ### unipolar neuron `http://purl.obolibrary.org/obo/CL_0000106` #### Removed - [unipolar neuron](http://purl.obolibrary.org/obo/CL_0000106) SubClassOf [neuron](http://purl.obolibrary.org/obo/CL_0000540) #### Added - [unipolar neuron](http://purl.obolibrary.org/obo/CL_0000106) SubClassOf [peripheral nervous system neuron](http://purl.obolibrary.org/obo/CL_2000032)
Caroline-99 commented 1 month ago

gogoeditdiff

AvolaAmg commented 1 month ago

@Caroline-99 I have addressed your comments, feel free to re-review.

Caroline-99 commented 1 month ago

gogoeditdiff

Caroline-99 commented 1 month ago

Thank you for doing all the changes. Everything looks good other than the photoreceptor cell, I will approve it once you change the classification.

Caroline-99 commented 4 weeks ago

gogoeditdiff