Update CL_0004117: Rename to alpha retinal ganglion cell (Mmus) and revise definition

[Copilot]

Updates term CL_0004117 with revised nomenclature and comprehensive definition reflecting current understanding of alpha RGC biology.

Changes

• Label: retinal ganglion cell A → alpha retinal ganglion cell (Mmus)
• Definition: Replaced brief morphological description with detailed characterization including:
  • Morphology: large-bodied soma, wide monostratified dendritic arbors in defined IPL strata
  • Molecular: high neurofilament and osteopontin expression
  • Physiology: thick fast-conducting axon, short-latency non-direction-selective responses, large receptive fields, distinctive rapid AP waveform
  • Population: ~5% of mammalian RGCs, four conserved ON/OFF sustained/transient subtypes
  • Reference: PMID:28753612
• Synonym: Added retinal ganglion cell A as exact synonym (PMID:12209831) for backward compatibility

Validation

• Syntax valid (robot convert)
• Logically consistent (robot reason -r ELK)
• No impact on existing relationships or subclass hierarchy

Original prompt

---

This section details on the original issue you should resolve

<issue_title>[Text def] Revise textual definition of Retinal Ganglion Cell A into Alpha retinal ganglion cell</issue_title> <issue_description>CL term CL_0004117

Revised cell label alpha retinal ganglion cell

Suggested revision of textual definition A large-bodied retinal projection neuron with wide monostratified dendritic arbors in defined IPL strata, high neurofilament and osteopontin expression, and a thick, fast-conducting axon. It shows short-latency, non–direction-selective responses with large receptive fields and a distinctive rapid action potential waveform. In mammals it forms about five percent of RGCs and includes four conserved ON and OFF sustained and transient subtypes

PMID:28753612

exact synonym: Retinal ganglion cell A PMID:12209831</issue_description>

Comments on the Issue (you are @copilot in this section)

• Fixes obophenotype/cell-ontology#3523

---

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[RiveraAndrea83]

#gogoeditdiff

[github-actions[bot]]

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/2026-02-17/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/2026-02-17/cl-base.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-base-pr.owl/cl-base.owl

Ontology imports

Ontology annotations

retinal ganglion cell A http://purl.obolibrary.org/obo/CL_0004117

Removed

• retinal ganglion cell A IAO_0000115 "A monostratified retinal ganglion cell with large soma and large dendritic field."

  • hasDbXref "PMID:12209831"

• retinal ganglion cell A label "retinal ganglion cell A"

Added

• retinal ganglion cell A hasExactSynonym "retinal ganglion cell A"

  • hasDbXref "PMID:12209831"

• retinal ganglion cell A IAO_0000115 "A large-bodied retinal projection neuron with wide monostratified dendritic arbors in defined IPL strata, high neurofilament and osteopontin expression, and a thick, fast-conducting axon. It shows short-latency, non-direction-selective responses with large receptive fields and a distinctive rapid action potential waveform. In mammals it forms about five percent of RGCs and includes four conserved ON and OFF sustained and transient subtypes."

  • hasDbXref "PMID:28753612"

• retinal ganglion cell A label "alpha retinal ganglion cell (Mmus)"

[github-actions[bot]]

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

retinal ganglion cell A http://purl.obolibrary.org/obo/CL_0004117

Removed

• retinal ganglion cell A definition "A monostratified retinal ganglion cell with large soma and large dendritic field."

  • has cross-reference "PMID:12209831"

• retinal ganglion cell A label "retinal ganglion cell A"

Added

• retinal ganglion cell A has exact synonym "retinal ganglion cell A"

  • has cross-reference "PMID:12209831"

• retinal ganglion cell A definition "A large-bodied retinal projection neuron with wide monostratified dendritic arbors in defined IPL strata, high neurofilament and osteopontin expression, and a thick, fast-conducting axon. It shows short-latency, non-direction-selective responses with large receptive fields and a distinctive rapid action potential waveform. In mammals it forms about five percent of RGCs and includes four conserved ON and OFF sustained and transient subtypes."

  • has cross-reference "PMID:28753612"

• retinal ganglion cell A label "alpha retinal ganglion cell (Mmus)"

[RiveraAndrea83]

@copilot please change label to: alpha retinal ganglion cell (Mmus)

[Copilot]

@copilot please change label to: alpha retinal ganglion cell (Mmus)

Updated the label to "alpha retinal ganglion cell (Mmus)" in commit 120a536.

[Caroline-99]

#gogoeditdiff

[github-actions[bot]]

This PR has not seen any activity in the past month; if nobody comments or reviews it in the next week, the PR editor will be allowed to proceed with merging without explicit approval, should they wish to do so.

[dosumis]

#gogoeditdiff - looks good to me, just make sure no accidental changes to MSN in this PR.

[RiveraAndrea83]

#gogoeditdiff