diff --git a/CLAUDE.md b/CLAUDE.md index de0de7649..88d1cb864 100644 --- a/CLAUDE.md +++ b/CLAUDE.md @@ -72,6 +72,7 @@ This includes instructions for editing the cl ontology. obsolete terms should have no logical axioms (e.g. SubClassOf, EquivalentClasses) on them. Obsolete terms may be replaced by a single term (so-called obsoletion with exact replacement), or by zero to many `consider` tags. +**IMPORTANT: DO NOT EDIT OBSOLETE TERMS** except to add mappings and comments. Obsolete terms are marked with `owl:deprecated "true"` and their labels start with "obsolete". They should not be modified during routine edits like species naming standardization or other systematic updates. Synonyms and xrefs can be migrated judiciously, diff --git a/docs/editing_guidelines.md b/docs/editing_guidelines.md index 11ab025de..406e2ab3d 100644 --- a/docs/editing_guidelines.md +++ b/docs/editing_guidelines.md @@ -14,6 +14,68 @@ For classes that refer to cell types in specific anatomical structures, the labe Try to maintain consistent patterns of naming where possible. However, it may make sense to override this in order to conform to common usage. +## Species-specific terms + +### Species naming convention +Cell types that are specific to particular species should follow a standardized naming convention to ensure consistency and clarity. + +**Species naming format:** +- Species-specific terms should include a species indicator in parentheses at the end of the label +- Use the format `(Gsss)` where `G` is the first letter of the genus and `sss` are the first three letters of the species name +- For taxa above the species level, use the full taxonomic name + +**Examples:** +- **Homo sapiens** → `(Hsap)` +- **Mus musculus** → `(Mmus)` +- **Callithrix jacchus** → `(Cjac)` +- **Primates** → `(Primates)` (supra-species taxon) + +**Note on sensu terms:** +- **Purpose**: Use "sensu" notation when the same cell type name refers to different concepts in different taxa +- **Example**: "neuroblast" refers to a stem cell in arthropods but to an immature neuron in vertebrates, requiring separate terms like "neuroblast (sensu Arthropoda)" and "neuroblast (sensu Vertebrata)" +- **When to use**: Apply sensu notation when homonymous cell type names have distinct biological meanings across taxonomic groups +- **Existing terms**: Current sensu terms follow this principle and are maintained +- **Future use**: Continue using sensu notation for new terms when taxonomic disambiguation is needed +- **Standard format**: For species-specific cell types that are truly the same concept across related species, use the standardized `(Gsss)` format above + +**Complete example:** +``` +"L2/3 intratelencephalic projecting glutamatergic neuron (Hsap)" +"immature NK T cell stage I (Mmus)" +``` + +### Relationship to in_taxon restrictions +Species-specific naming and logical axioms must be consistent: + +1. **All species-specific terms must have corresponding in_taxon axioms:** + - Every term with a species indicator in its name MUST have a corresponding `SubClassOf` axiom using the `in_taxon` (`RO_0002162`) property + - The taxon specified in the axiom must match the species indicated in the name + +2. **Required axiom format:** + ``` + SubClassOf(obo:CL_XXXXXXX ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_YYYYY)) + ``` + +3. **Examples:** + - Human terms: `ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)` + - Mouse terms: `ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090)` + +4. **Inheritance considerations:** + - Terms inherit in_taxon restrictions from their parent classes + - If a parent class already has the appropriate species restriction, child classes may not need explicit restrictions + - However, species-specific names should still be used when the cell type is found only in that species + +### Historical synonyms +When standardizing species naming: +- **Always preserve original labels as exact synonyms** to maintain backward compatibility +- Original labels using formats like `, human`, `, mouse`, or `(Homo sapiens)` should be retained as `hasExactSynonym` annotations +- This ensures existing tools and users can still find terms using historical naming conventions + +**Example:** +``` +AnnotationAssertion(rdfs:label obo:CL_XXXXXXX "activated CD4-positive, alpha-beta T cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_XXXXXXX "activated CD4-positive, alpha-beta T cell, human") +``` ## Defining terms This section is about the _textual_ definition of terms. Logically consistent classification is important, but an ontology is only useful (and maintainable) if all humans that interact with it (users, curators and editors) can quickly find the terms they need and understand what they refer to. This requires clear, unambiguous, human-readable definitions. @@ -58,7 +120,9 @@ Try to be consistent in how you phrase the various types of comments. For exampl ## Synonyms -Extensive addition of synonyms helps “findability” of terms when search. Synonyms can and should be added liberally. Of note, the intention of the ontology is not meant to record how a synonym is used in all specific sources in which it appears. Rather an editor, after doing due diligence in researching the terms/synonyms, must determine how a term is used at the present moment in the scientific community. +Extensive addition of synonyms helps "findability" of terms when searching. Synonyms can and should be added liberally. Of note, the intention of the ontology is not meant to record how a synonym is used in all specific sources in which it appears. Rather an editor, after doing due diligence in researching the terms/synonyms, must determine how a term is used at the present moment in the scientific community. + +**IMPORTANT: Always preserve existing synonyms.** When adding new synonyms to a term, existing synonyms must never be removed or overwritten. This ensures backward compatibility and preserves the historical semantic annotations that users and tools may depend upon. Guidelines on the type of synonyms: diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index df31834da..77243eadf 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -12345,7 +12345,8 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000938 "CD16-negative, CD56 AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000938 "CD56-bright cytokine secreting NK cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000938 "CD56-bright cytokine secreting natural killer cell") AnnotationAssertion(rdfs:comment obo:CL_0000938 "This cell type is compatible with the HIPC Lyoplate markers for 'CD16-CD56bright NK cell'. Markers are associated with human cell types.") -AnnotationAssertion(rdfs:label obo:CL_0000938 "CD16-negative, CD56-bright natural killer cell, human") +AnnotationAssertion(rdfs:label obo:CL_0000938 "CD16-negative, CD56-bright natural killer cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000938 "CD16-negative, CD56-bright natural killer cell, human") EquivalentClasses(obo:CL_0000938 ObjectIntersectionOf(obo:CL_0000824 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001483) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001319) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0032609) ObjectSomeValuesFrom(obo:RO_0015015 obo:PR_000001024))) # Class: obo:CL_0000939 (CD16-positive, CD56-dim natural killer cell, human) @@ -12360,7 +12361,8 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000939 "CD16-positive, CD56 AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000939 "cytotoxic CD56-dim NK cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000939 "cytotoxic CD56-dim natural killer cell") AnnotationAssertion(rdfs:comment obo:CL_0000939 "This cell type is compatible with the HIPC Lyoplate markers for 'CD16+CD56+ NK cell'. Markers are associated with human cell types.") -AnnotationAssertion(rdfs:label obo:CL_0000939 "CD16-positive, CD56-dim natural killer cell, human") +AnnotationAssertion(rdfs:label obo:CL_0000939 "CD16-positive, CD56-dim natural killer cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000939 "CD16-positive, CD56-dim natural killer cell, human") EquivalentClasses(obo:CL_0000939 ObjectIntersectionOf(obo:CL_0000824 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001483) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0001816) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0042267) ObjectSomeValuesFrom(obo:RO_0015016 obo:PR_000001024))) # Class: obo:CL_0000940 (mucosal-associated invariant T cell) @@ -13364,11 +13366,15 @@ SubClassOf(obo:CL_0001042 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000896)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:22343568") obo:IAO_0000115 obo:CL_0001043 "A recently activated CD4-positive, alpha-beta T cell with the phenotype HLA-DRA-positive, CD38-positive, CD69-positive, CD62L-negative, CD127-negative, and CD25-positive.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22343568") oboInOwl:hasBroadSynonym obo:CL_0001043 "activated CD4+ T cell") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T lymphocyte (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T-cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T-lymphocyte (Hsap)") +AnnotationAssertion(rdfs:comment obo:CL_0001043 "This cell type is compatible with the HIPC Lyoplate markers for 'activated CD4+ T cell', but includes via logical inference from its parent additional markers known to be expressed on activated CD4+ T cells. The inclusion of HLA-DRA in the definition restricts this definition to human activated CD4+ T cells, as activated mouse T cells do not express MHC class II.") +AnnotationAssertion(rdfs:label obo:CL_0001043 "activated CD4-positive, alpha-beta T cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T lymphocyte, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T-cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001043 "activated CD4-positive, alpha-beta T-lymphocyte, human") -AnnotationAssertion(rdfs:comment obo:CL_0001043 "This cell type is compatible with the HIPC Lyoplate markers for 'activated CD4+ T cell', but includes via logical inference from its parent additional markers known to be expressed on activated CD4+ T cells. The inclusion of HLA-DRA in the definition restricts this definition to human activated CD4+ T cells, as activated mouse T cells do not express MHC class II.") -AnnotationAssertion(rdfs:label obo:CL_0001043 "activated CD4-positive, alpha-beta T cell, human") EquivalentClasses(obo:CL_0001043 ObjectIntersectionOf(obo:CL_0000896 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001408) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001043 obo:CL_0000896) @@ -13428,7 +13434,8 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001048 "activated CD4-posit AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001048 "activated CD4-positive, CD25-positive, CCR4-positive, alpha-beta regulatory T-cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001048 "activated CD4-positive, CD25-positive, CCR4-positive, alpha-beta regulatory T-lymphocyte") AnnotationAssertion(rdfs:comment obo:CL_0001048 "This cell type is compatible with the HIPC Lyoplate markers for 'activated CCR4+ Treg'. The inclusion of HLA-DRA in the definition restricts this definition to human activated CD4+ T cells, as activated mouse T cells do not express MHC class II.") -AnnotationAssertion(rdfs:label obo:CL_0001048 "activated CD4-positive, CD25-positive, CCR4-positive, alpha-beta regulatory T cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001048 "activated CD4-positive, CD25-positive, CCR4-positive, alpha-beta regulatory T cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001048 "activated CD4-positive, CD25-positive, CCR4-positive, alpha-beta regulatory T cell, human") EquivalentClasses(obo:CL_0001048 ObjectIntersectionOf(obo:CL_0001047 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001048 obo:CL_0001047) @@ -13436,11 +13443,15 @@ SubClassOf(obo:CL_0001048 obo:CL_0001047) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:22343568") obo:IAO_0000115 obo:CL_0001049 "A recently activated CD8-positive, alpha-beta T cell with the phenotype HLA-DRA-positive, CD38-positive, CD69-positive, CD62L-negative, CD127-negative, CCR7-negative, and CD25-positive.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22343568") oboInOwl:hasBroadSynonym obo:CL_0001049 "activated CD8+ T cell") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T lymphocyte (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T-cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T-lymphocyte (Hsap)") +AnnotationAssertion(rdfs:comment obo:CL_0001049 "This cell type is compatible with the HIPC Lyoplate markers for 'activated CD8+ T cell', but includes via logical inference from its parent additional markers known to be expressed on activated CD8+ T cells. The inclusion of HLA-DRA in the definition restricts this definition to human activated CD8+ T cells, as activated mouse T cells do not express MHC class II.") +AnnotationAssertion(rdfs:label obo:CL_0001049 "activated CD8-positive, alpha-beta T cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T lymphocyte, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T-cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001049 "activated CD8-positive, alpha-beta T-lymphocyte, human") -AnnotationAssertion(rdfs:comment obo:CL_0001049 "This cell type is compatible with the HIPC Lyoplate markers for 'activated CD8+ T cell', but includes via logical inference from its parent additional markers known to be expressed on activated CD8+ T cells. The inclusion of HLA-DRA in the definition restricts this definition to human activated CD8+ T cells, as activated mouse T cells do not express MHC class II.") -AnnotationAssertion(rdfs:label obo:CL_0001049 "activated CD8-positive, alpha-beta T cell, human") EquivalentClasses(obo:CL_0001049 ObjectIntersectionOf(obo:CL_0000906 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001408) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001049 obo:CL_0000906) @@ -13501,6 +13512,7 @@ SubClassOf(obo:CL_0001054 obo:CL_0000576) # Class: obo:CL_0001055 (CD14-positive, CD16-low monocyte) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:20628149") obo:IAO_0000115 obo:CL_0001055 "An intermediate monocyte that is CD14-positive and with low amounts of CD16.") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001055 "intermediate monocyte (Hsap)") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001055 "intermediate monocyte, human") AnnotationAssertion(rdfs:comment obo:CL_0001055 "Definition is valid for human intermediate monocytes.") AnnotationAssertion(rdfs:label obo:CL_0001055 "CD14-positive, CD16-low monocyte") @@ -13512,7 +13524,8 @@ SubClassOf(obo:CL_0001055 obo:CL_0002393) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:22343568") obo:IAO_0000115 obo:CL_0001056 "A dendritic cell with the phenotype HLA-DRA-positive.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22343568") oboInOwl:hasBroadSynonym obo:CL_0001056 "dendritic cell") AnnotationAssertion(rdfs:comment obo:CL_0001056 "This cell type is compatible with the HIPC Lyoplate markers for 'dendritic cell'. The inclusion of HLA-DRA in the definition restricts this definition to human dendritic cells.") -AnnotationAssertion(rdfs:label obo:CL_0001056 "dendritic cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001056 "dendritic cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001056 "dendritic cell, human") EquivalentClasses(obo:CL_0001056 ObjectIntersectionOf(obo:CL_0000451 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001056 obo:CL_0000451) @@ -13521,7 +13534,8 @@ SubClassOf(obo:CL_0001056 obo:CL_0000451) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:22343568") obo:IAO_0000115 obo:CL_0001057 "A myeloid dendritic cell with the phenotype HLA-DRA-positive.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22343568") oboInOwl:hasBroadSynonym obo:CL_0001057 "myeloid dendritic cell") AnnotationAssertion(rdfs:comment obo:CL_0001057 "This cell type is compatible with the HIPC Lyoplate markers for 'myeloid dendritic cell'. The inclusion of HLA-DRA in the definition restricts this definition to human myeloid dendritic cells.") -AnnotationAssertion(rdfs:label obo:CL_0001057 "myeloid dendritic cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001057 "myeloid dendritic cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001057 "myeloid dendritic cell, human") EquivalentClasses(obo:CL_0001057 ObjectIntersectionOf(obo:CL_0000782 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001057 obo:CL_0000782) @@ -13530,7 +13544,8 @@ SubClassOf(obo:CL_0001057 obo:CL_0000782) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:22343568") obo:IAO_0000115 obo:CL_0001058 "A plasmacytoid dendritic cell with the phenotype HLA-DRA-positive, CD123-positive, and CD11c-negative.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22343568") oboInOwl:hasBroadSynonym obo:CL_0001058 "plasmacytoid dendritic cell") AnnotationAssertion(rdfs:comment obo:CL_0001058 "This cell type is compatible with the HIPC Lyoplate markers for 'plasmacytoid dendritic cell'. The inclusion of HLA-DRA in the definition restricts this definition to human plasmacytoid dendritic cells.") -AnnotationAssertion(rdfs:label obo:CL_0001058 "plasmacytoid dendritic cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001058 "plasmacytoid dendritic cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001058 "plasmacytoid dendritic cell, human") EquivalentClasses(obo:CL_0001058 ObjectIntersectionOf(obo:CL_0000784 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001013) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001865) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002015) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001058 obo:CL_0000784) @@ -13688,7 +13703,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001072 "CD34-negative, CD117-positive ILC") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001072 "CD34-negative, CD117-positive ILCP") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001072 "CD34-negative, CD117-positive innate lymphoid cell precusor") -AnnotationAssertion(rdfs:label obo:CL_0001072 "CD34-negative, CD117-positive innate lymphoid cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001072 "CD34-negative, CD117-positive innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001072 "CD34-negative, CD117-positive innate lymphoid cell, human") EquivalentClasses(obo:CL_0001072 ObjectIntersectionOf(obo:CL_0001065 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_P28906) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0001501) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P10721) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) SubClassOf(obo:CL_0001072 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0001074)) @@ -13698,61 +13714,73 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001073 "CD34-negative, CD56-positive, CD117-positive ILC") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001073 "CD34-negative, CD56-positive, CD117-positive ILCP") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001073 "CD34-negative, CD56-positive, CD117-positive innate lymphoid cell precursor") -AnnotationAssertion(rdfs:label obo:CL_0001073 "CD34-negative, CD56-positive, CD117-positive innate lymphoid cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001073 "CD34-negative, CD56-positive, CD117-positive innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001073 "CD34-negative, CD56-positive, CD117-positive innate lymphoid cell, human") EquivalentClasses(obo:CL_0001073 ObjectIntersectionOf(obo:CL_0001072 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P10721) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P13591) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001074 (CD34-positive, CD56-positive, CD117-positive common innate lymphoid precursor, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:30193847") obo:IAO_0000115 obo:CL_0001074 "An innate lymphoid cell precursor in the human with the phenotype CD34-positive, CD56-positive, CD117-positive.Thie cell type may include precusors to NK cells and ILC3 cells.") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001074 "CD34-positive, CD56-positive, CD117-positive CILP") -AnnotationAssertion(rdfs:label obo:CL_0001074 "CD34-positive, CD56-positive, CD117-positive common innate lymphoid precursor, human") +AnnotationAssertion(rdfs:label obo:CL_0001074 "CD34-positive, CD56-positive, CD117-positive common innate lymphoid precursor (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001074 "CD34-positive, CD56-positive, CD117-positive common innate lymphoid precursor, human") EquivalentClasses(obo:CL_0001074 ObjectIntersectionOf(obo:CL_0001065 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0001501) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P10721) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P13591) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P28906) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001075 (KLRG1-positive innate lymphoid cell, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:31201208") obo:IAO_0000115 obo:CL_0001075 "An innate lymphoid cell in the human with the phenotype KLRG1-positive that is a precusor for ILC2 cells.") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001075 "KLRG1-positive ILC") -AnnotationAssertion(rdfs:label obo:CL_0001075 "KLRG1-positive innate lymphoid cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001075 "KLRG1-positive innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001075 "KLRG1-positive innate lymphoid cell, human") EquivalentClasses(obo:CL_0001075 ObjectIntersectionOf(obo:CL_0001072 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_Q96E93) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001076 (NKp46-positive innate lymphoid cell, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:31201208") Annotation(oboInOwl:hasDbXref "PMID:31337734") obo:IAO_0000115 obo:CL_0001076 "An innate lymphoid cell in the human with the phenotype NKp46-positive that is a precusor for NK cells and ILC3 cells.") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001076 "NKp46-positive ILC") -AnnotationAssertion(rdfs:label obo:CL_0001076 "NKp46-positive innate lymphoid cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001076 "NKp46-positive innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001076 "NKp46-positive innate lymphoid cell, human") EquivalentClasses(obo:CL_0001076 ObjectIntersectionOf(obo:CL_0001074 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_O76036) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001077 (ILC1, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:31500958") obo:IAO_0000115 obo:CL_0001077 "An ILC1 cell in the human with the phenotype CD56-negative, IL-7Ralpha-positive, T-bet-positive.") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001077 "innate lymphoid cell 1 (Hsap)") +AnnotationAssertion(rdfs:label obo:CL_0001077 "ILC1 (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001077 "ILC1, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001077 "innate lymphoid cell 1, human") -AnnotationAssertion(rdfs:label obo:CL_0001077 "ILC1, human") EquivalentClasses(obo:CL_0001077 ObjectIntersectionOf(obo:CL_0001068 ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_Q9UL17) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P16871) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001078 (group 3 innate lymphoid cell, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:31500958") obo:IAO_0000115 obo:CL_0001078 "A group 3 innate lymphoid cell in the human with the phenotype IL-7Ralpha-positive.") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001078 "ILC3 (Hsap)") +AnnotationAssertion(rdfs:label obo:CL_0001078 "group 3 innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001078 "group 3 innate lymphoid cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001078 "ILC3, human") -AnnotationAssertion(rdfs:label obo:CL_0001078 "group 3 innate lymphoid cell, human") EquivalentClasses(obo:CL_0001078 ObjectIntersectionOf(obo:CL_0001071 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P16871) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001079 (NKp44-positive group 3 innate lymphoid cell, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:24778151") Annotation(oboInOwl:hasDbXref "PMID:31500958") obo:IAO_0000115 obo:CL_0001079 "A group 3 innate lymphoid cell in the human with the phenotype IL-7Ralpha-positive, and NKp44-positive.") -AnnotationAssertion(rdfs:label obo:CL_0001079 "NKp44-positive group 3 innate lymphoid cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001079 "NKp44-positive group 3 innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001079 "NKp44-positive group 3 innate lymphoid cell, human") EquivalentClasses(obo:CL_0001079 ObjectIntersectionOf(obo:CL_0001071 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_O95944) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P16871) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001080 (NKp44-negative group 3 innate lymphoid cell, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:24778151") Annotation(oboInOwl:hasDbXref "PMID:31500958") obo:IAO_0000115 obo:CL_0001080 "A group 3 innate lymphoid cell in the human with the phenotype IL-7Ralpha-positive, and NKp44-negative.") -AnnotationAssertion(rdfs:label obo:CL_0001080 "NKp44-negative group 3 innate lymphoid cell, human") +AnnotationAssertion(rdfs:label obo:CL_0001080 "NKp44-negative group 3 innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001080 "NKp44-negative group 3 innate lymphoid cell, human") EquivalentClasses(obo:CL_0001080 ObjectIntersectionOf(obo:CL_0001071 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_O95944) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P16871) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001081 (group 2 innate lymphoid cell, human) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add") Annotation(oboInOwl:hasDbXref "PMID:24778151") Annotation(oboInOwl:hasDbXref "PMID:26844414") obo:IAO_0000115 obo:CL_0001081 "A group 2 innate lymphoid cell in the human with the phenotype CD25-positive, CD127-positive, CD161-positive, and GATA-3-positive.") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001081 "ILC2 (Hsap)") +AnnotationAssertion(rdfs:label obo:CL_0001081 "group 2 innate lymphoid cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001081 "group 2 innate lymphoid cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0001081 "ILC2, human") -AnnotationAssertion(rdfs:label obo:CL_0001081 "group 2 innate lymphoid cell, human") EquivalentClasses(obo:CL_0001081 ObjectIntersectionOf(obo:CL_0001069 ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_P23771) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P01589) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P16871) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_Q12918) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_Q9Y5Y4) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0001082 (immature innate lymphoid cell) @@ -14284,7 +14312,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002039 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002039 "2009-10-29T04:09:16Z"^^xsd:dateTime) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17589542") rdfs:comment obo:CL_0002039 "The immature NK T cell stage” (I–IV) represents mouse-specific stages used to define iNKT cell development. The immature NK T cells in humans typically exhibit a CD161low; CD4+ phenotype.") -AnnotationAssertion(rdfs:label obo:CL_0002039 "immature NK T cell stage I, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002039 "immature NK T cell stage I (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002039 "immature NK T cell stage I, mouse") EquivalentClasses(obo:CL_0002039 ObjectIntersectionOf(obo:CL_0000914 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001307) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001874) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090) ObjectSomeValuesFrom(obo:RO_0015015 obo:PR_000001932) ObjectSomeValuesFrom(obo:RO_0015016 obo:PR_000001004) ObjectSomeValuesFrom(obo:RO_0015016 obo:PR_000025402))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0002039 obo:CL_0000914) SubClassOf(obo:CL_0002039 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000809)) @@ -14296,7 +14325,8 @@ AnnotationAssertion(terms:contributor obo:CL_0002040 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002089 "2010-08-12T02:22:19Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_0002089 "nuocyte") -AnnotationAssertion(rdfs:label obo:CL_0002089 "group 2 innate lymphoid cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002089 "group 2 innate lymphoid cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002089 "group 2 innate lymphoid cell, mouse") EquivalentClasses(obo:CL_0002089 ObjectIntersectionOf(obo:CL_0001069 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001002) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001004) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001008) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001012) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001020) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001024) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001084) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001326) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001893) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001927) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000007431) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001860) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001869) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000008982) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000008994) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002830) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0032616))) # Class: obo:CL_0002090 (polar body) @@ -17618,7 +17651,8 @@ AnnotationAssertion(terms:contributor obo:CL_0002338 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002346 "2010-09-21T10:11:44Z"^^xsd:dateTime) -AnnotationAssertion(rdfs:label obo:CL_0002346 "Dx5-negative, NK1.1-positive immature natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002346 "Dx5-negative, NK1.1-positive immature natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002346 "Dx5-negative, NK1.1-positive immature natural killer cell, mouse") EquivalentClasses(obo:CL_0002346 ObjectIntersectionOf(obo:CL_0000823 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001008) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002977) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002347 (CD27-high, CD11b-high natural killer cell, mouse) @@ -17703,7 +17741,8 @@ EquivalentClasses(obo:CL_0002346 ObjectIntersectionOf(obo:CL_0000823 ObjectSomeV AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "PMID:19949422") obo:IAO_0000115 obo:CL_0002347 "A mature natural killer cell that is CD27-high and CD11b-high. This cell type is capable of interferon-gamma secretion.") AnnotationAssertion(terms:contributor obo:CL_0002347 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002347 "2010-09-21T10:19:49Z"^^xsd:dateTime) -AnnotationAssertion(rdfs:label obo:CL_0002347 "CD27-high, CD11b-high natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002347 "CD27-high, CD11b-high natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002347 "CD27-high, CD11b-high natural killer cell, mouse") EquivalentClasses(obo:CL_0002347 ObjectIntersectionOf(obo:CL_0000824 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0032609) ObjectSomeValuesFrom(obo:RO_0015015 obo:PR_000001012) ObjectSomeValuesFrom(obo:RO_0015015 obo:PR_000001963))) SubClassOf(obo:CL_0002347 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002349)) @@ -17712,7 +17751,8 @@ SubClassOf(obo:CL_0002347 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002349)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "PMID:1994922") obo:IAO_0000115 obo:CL_0002348 "A CD27-low, CD11b-high natural killer cell that has a higher threshold of activation due to higher expression of inhibitory receptors.") AnnotationAssertion(terms:contributor obo:CL_0002348 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002348 "2010-09-21T10:19:54Z"^^xsd:dateTime) -AnnotationAssertion(rdfs:label obo:CL_0002348 "CD27-low, CD11b-high natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002348 "CD27-low, CD11b-high natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002348 "CD27-low, CD11b-high natural killer cell, mouse") EquivalentClasses(obo:CL_0002348 ObjectIntersectionOf(obo:CL_0000824 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090) ObjectSomeValuesFrom(obo:RO_0015015 obo:PR_000001012) ObjectSomeValuesFrom(obo:RO_0015016 obo:PR_000001963))) SubClassOf(obo:CL_0002348 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002347)) @@ -17721,7 +17761,8 @@ SubClassOf(obo:CL_0002348 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002347)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "PMID:1994922") obo:IAO_0000115 obo:CL_0002349 "A natural killer cell that is CD27-high and CD11b-low.") AnnotationAssertion(terms:contributor obo:CL_0002349 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002349 "2010-09-21T10:20:00Z"^^xsd:dateTime) -AnnotationAssertion(rdfs:label obo:CL_0002349 "CD27-high, CD11b-low natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002349 "CD27-high, CD11b-low natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002349 "CD27-high, CD11b-low natural killer cell, mouse") EquivalentClasses(obo:CL_0002349 ObjectIntersectionOf(obo:CL_0000824 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090) ObjectSomeValuesFrom(obo:RO_0015015 obo:PR_000001963) ObjectSomeValuesFrom(obo:RO_0015016 obo:PR_000001012))) SubClassOf(obo:CL_0002349 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002345)) @@ -18187,6 +18228,7 @@ SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0002395 obo:CL_0000860 AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "PMID:20870168") obo:IAO_0000115 obo:CL_0002396 "A patrolling monocyte that is CD14-low and CD16-positive.") AnnotationAssertion(terms:contributor obo:CL_0002396 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002396 "2010-10-04T12:25:42Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002396 "non-classical monocyte (Hsap)") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002396 "non-classical monocyte, human") AnnotationAssertion(rdfs:comment obo:CL_0002396 "Markers are associated with human monocytes.") AnnotationAssertion(rdfs:label obo:CL_0002396 "CD14-low, CD16-positive monocyte") @@ -18499,7 +18541,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002426 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002426 "2010-10-25T03:07:59Z"^^xsd:dateTime) AnnotationAssertion(rdfs:comment obo:CL_0002426 "A natural killer cell that is NK1.1-positive, CD11b-positive, and CD27-positive.") -AnnotationAssertion(rdfs:label obo:CL_0002426 "CD11b-positive, CD27-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002426 "CD11b-positive, CD27-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002426 "CD11b-positive, CD27-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002426 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001012) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001963) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002427 (resting double-positive thymocyte) @@ -18639,7 +18682,8 @@ AnnotationAssertion(oboInOwl:creation_date obo:CL_0002438 "2010-10-25T03:18:04Z" AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002438 "NK.sp") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002438 "NK1.1-positive NK cell") AnnotationAssertion(rdfs:comment obo:CL_0002438 "Note: Nk1.1 expression is restricted to C57BL strains of laboratory mice.") -AnnotationAssertion(rdfs:label obo:CL_0002438 "NK1.1-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002438 "NK1.1-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002438 "NK1.1-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002438 ObjectIntersectionOf(obo:CL_0000824 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002977) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002439 (NKGA2-positive natural killer cell, mouse) @@ -18648,7 +18692,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002439 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002439 "2010-10-25T03:31:09Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002439 "NK.G2A+.SP") -AnnotationAssertion(rdfs:label obo:CL_0002439 "NKGA2-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002439 "NKGA2-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002439 "NKGA2-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002439 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002023) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002440 (Ly49D-positive natural killer cell, mouse) @@ -18657,7 +18702,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002440 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002440 "2010-10-25T03:36:19Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002440 "NK.49D+.Sp") -AnnotationAssertion(rdfs:label obo:CL_0002440 "Ly49D-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002440 "Ly49D-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002440 "Ly49D-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002440 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000009619) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002441 (CD94-positive natural killer cell, mouse) @@ -18666,7 +18712,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002441 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002441 "2010-10-25T03:36:28Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002441 "NK.94+.Sp") -AnnotationAssertion(rdfs:label obo:CL_0002441 "CD94-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002441 "CD94-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002441 "CD94-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002441 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001402) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002442 (CD94-negative, Ly49CI-negative natural killer cell, mouse) @@ -18676,7 +18723,8 @@ AnnotationAssertion(terms:contributor obo:CL_0002442 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002444 "2010-10-25T03:36:43Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002444 "LyH49H-positive") -AnnotationAssertion(rdfs:label obo:CL_0002444 "Ly49H-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002444 "Ly49H-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002444 "Ly49H-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002444 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000009623) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002445 (Ly49D-negative natural killer cell, mouse) @@ -18704,7 +18754,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002445 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002445 "2010-10-25T03:39:02Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002445 "NK.49D-.Sp") -AnnotationAssertion(rdfs:label obo:CL_0002445 "Ly49D-negative natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002445 "Ly49D-negative natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002445 "Ly49D-negative natural killer cell, mouse") EquivalentClasses(obo:CL_0002445 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000009619) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002446 (Ly49CI-negative natural killer cell, mouse) @@ -18714,7 +18765,8 @@ AnnotationAssertion(terms:contributor obo:CL_0002446 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002447 "2010-10-25T03:54:18Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002447 "NK.94-.Sp") -AnnotationAssertion(rdfs:label obo:CL_0002447 "CD94-negative natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002447 "CD94-negative natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002447 "CD94-negative natural killer cell, mouse") EquivalentClasses(obo:CL_0002447 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001402) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002448 (Ly49H-negative natural killer cell, mouse) @@ -18732,7 +18785,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002448 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002448 "2010-10-25T03:42:42Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002448 "LyH49H-negative") -AnnotationAssertion(rdfs:label obo:CL_0002448 "Ly49H-negative natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002448 "Ly49H-negative natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002448 "Ly49H-negative natural killer cell, mouse") EquivalentClasses(obo:CL_0002448 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000009623) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002449 (CD94-positive Ly49CI-positive natural killer cell, mouse) @@ -18741,7 +18795,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl AnnotationAssertion(terms:contributor obo:CL_0002449 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002449 "2010-10-25T03:56:27Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002449 "NK.49Cl+94+.Sp") -AnnotationAssertion(rdfs:label obo:CL_0002449 "CD94-positive Ly49CI-positive natural killer cell, mouse") +AnnotationAssertion(rdfs:label obo:CL_0002449 "CD94-positive Ly49CI-positive natural killer cell (Mmus)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002449 "CD94-positive Ly49CI-positive natural killer cell, mouse") EquivalentClasses(obo:CL_0002449 ObjectIntersectionOf(obo:CL_0002438 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001402) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000009618) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))) # Class: obo:CL_0002450 (tether cell) @@ -24008,33 +24063,36 @@ TA: Transit Amplifying Cells") foaf:depiction obo:CL_0009080 ) AnnotationAssertion(terms:date obo:CL_0009081 "2021-11-25T09:26:32Z"^^xsd:dateTime) AnnotationAssertion(rdfs:comment obo:CL_0009081 "There is growing evidence that molecular markers characterizing double negative thymocytes are different across species, especially in human versus mouse thymus. This term is restricted for use with human data.") -AnnotationAssertion(rdfs:label obo:CL_0009081 "specified double negative thymocyte (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_0009081 "specified double negative thymocyte (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009081 "specified double negative thymocyte (Homo sapiens)") SubClassOf(obo:CL_0009081 obo:CL_0002489) SubClassOf(obo:CL_0009081 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) -# Class: obo:CL_0009082 (committed double negative thymocyte (Homo sapiens)) +# Class: obo:CL_0009082 (committed double negative thymocyte (Hsap)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:32304633") obo:IAO_0000115 obo:CL_0009082 "The human equivalent of a DN3 thymocyte; these thymocytes finish the process of beta selection.") AnnotationAssertion(terms:contributor obo:CL_0009082 ) AnnotationAssertion(terms:date obo:CL_0009082 "2021-11-25T09:30:45Z"^^xsd:dateTime) AnnotationAssertion(rdfs:comment obo:CL_0009082 "There is growing evidence that molecular markers characterizing double negative thymocytes are different across species, especially in human versus mouse thymus. This term is restricted for use with human data.") -AnnotationAssertion(rdfs:label obo:CL_0009082 "committed double negative thymocyte (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_0009082 "committed double negative thymocyte (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009082 "committed double negative thymocyte (Homo sapiens)") SubClassOf(obo:CL_0009082 obo:CL_0002489) SubClassOf(obo:CL_0009082 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) -# Class: obo:CL_0009083 (rearranging double negative thymocyte (Homo sapiens)) +# Class: obo:CL_0009083 (rearranging double negative thymocyte (Hsap)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:32304633") obo:IAO_0000115 obo:CL_0009083 "The human equivalent of a DN4 thymocyte.") AnnotationAssertion(terms:contributor obo:CL_0009083 ) AnnotationAssertion(terms:date obo:CL_0009083 "2021-11-25T09:32:13Z"^^xsd:dateTime) AnnotationAssertion(rdfs:comment obo:CL_0009083 "There is growing evidence that molecular markers characterizing double negative thymocytes are different across species, especially in human versus mouse thymus. This term is restricted for use with human data.") -AnnotationAssertion(rdfs:label obo:CL_0009083 "rearranging double negative thymocyte (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_0009083 "rearranging double negative thymocyte (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009083 "rearranging double negative thymocyte (Homo sapiens)") SubClassOf(obo:CL_0009083 obo:CL_0002489) SubClassOf(obo:CL_0009083 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) @@ -25061,8 +25119,10 @@ SubClassOf(obo:CL_0017006 obo:CL_0017005) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:28428369") Annotation(oboInOwl:hasDbXref "PMID:29221729") Annotation(oboInOwl:hasDbXref "PMID:31156637") obo:IAO_0000115 obo:CL_0017009 "A human dendritic cell that expresses the AXL and SIGLEC6 genes.") AnnotationAssertion(terms:contributor obo:CL_0017009 ) AnnotationAssertion(terms:date obo:CL_0017009 "2022-08-25T14:18:37Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0017009 "AS DC (Hsap)") +AnnotationAssertion(rdfs:label obo:CL_0017009 "Axl+ dendritic cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0017009 "Axl+ dendritic cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0017009 "AS DC, human") -AnnotationAssertion(rdfs:label obo:CL_0017009 "Axl+ dendritic cell, human") SubClassOf(obo:CL_0017009 obo:CL_0001056) SubClassOf(obo:CL_0017009 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_0017009 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_O43699)) @@ -25344,11 +25404,15 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:26382249") Annotation(ob AnnotationAssertion(terms:contributor obo:CL_0020002 ) AnnotationAssertion(terms:contributor obo:CL_0020002 ) AnnotationAssertion(terms:date obo:CL_0020002 "2025-10-07T00:00:00Z"^^xsd:dateTime) +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T lymphocyte (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T-cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T-lymphocyte (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:40781543") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_0020002 "MAIT (Hsap)") +AnnotationAssertion(rdfs:label obo:CL_0020002 "mucosal-associated invariant T cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T lymphocyte, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T-cell, human") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0020002 "mucosal-associated invariant T-lymphocyte, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:40781543") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_0020002 "MAIT, human") -AnnotationAssertion(rdfs:label obo:CL_0020002 "mucosal-associated invariant T cell, human") EquivalentClasses(obo:CL_0020002 ObjectIntersectionOf(obo:CL_0000940 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_Q12918) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_A0A0B4J238) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_0020003 (internal globus pallidus core projecting neuron) @@ -29928,6 +29992,7 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023019 "L5/6 CCK Vip (Mus m AnnotationAssertion(oboInOwl:inSubset obo:CL_4023019 cl:BDS_subset) AnnotationAssertion(rdfs:label obo:CL_4023019 "L5/6 cck, VIP GABAergic interneuron (Mmus)") EquivalentClasses(obo:CL_4023019 ObjectIntersectionOf(obo:CL_4023071 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_P32648))) +SubClassOf(obo:CL_4023019 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090)) # Class: obo:CL_4023020 (dynamic gamma motor neuron) @@ -34280,7 +34345,8 @@ AnnotationAssertion(terms:contributor obo:CL_4052051 ) AnnotationAssertion(terms:contributor obo:CL_4052055 ) AnnotationAssertion(terms:date obo:CL_4052055 "2025-03-26T11:56:38Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T lymphocyte, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T-cell, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T-lymphocyte, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NKT cell, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature natural killer T cell, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature natural killer T lymphocyte, human") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature natural killer T-lymphocyte, human") -AnnotationAssertion(rdfs:label obo:CL_4052055 "mature NK T cell, human") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T lymphocyte (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T-cell (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T-lymphocyte (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature NKT cell (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature natural killer T cell (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature natural killer T lymphocyte (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0009-0000-8480-9277") oboInOwl:hasExactSynonym obo:CL_4052055 "mature natural killer T-lymphocyte (Hsap)") +AnnotationAssertion(rdfs:label obo:CL_4052055 "mature NK T cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4052055 "mature NK T cell, human") EquivalentClasses(obo:CL_4052055 ObjectIntersectionOf(obo:CL_0000814 ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_P13591) ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))) # Class: obo:CL_4052058 (Merkel cell of epidermis) @@ -34729,7 +34798,7 @@ AnnotationAssertion(rdfs:label obo:CL_4072021 "corticotropin-releasing neuron") SubClassOf(obo:CL_4072021 obo:CL_0000099) SubClassOf(obo:CL_4072021 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0051458)) -# Class: obo:CL_4072022 (Lamp5 Lhx6 GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072022 (Lamp5 Lhx6 GABAergic interneuron (Hsap)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30382198") Annotation(oboInOwl:hasDbXref "PMID:36007006") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "PMID:37824669") Annotation(oboInOwl:hasDbXref "PMID:38712198") obo:IAO_0000115 obo:CL_4072022 "A Lamp5 Lhx6 GABAergic interneuron of Homo sapiens. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: CGE-derived interneurons', Author Categories: 'CrossArea_subclass', Lamp5 Lhx6") AnnotationAssertion(obo:RO_0002175 obo:CL_4072022 obo:NCBITaxon_9606) @@ -34737,7 +34806,8 @@ AnnotationAssertion(terms:date obo:CL_4072022 "2025-07-31T14:01:52Z"^^xsd:dateTi AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072022 "https://cellxgene.cziscience.com/e/e4ddac12-f48f-4455-8e8d-c2a48a683437.cxg/") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:32999462") rdfs:comment obo:CL_4072022 "Despite being clustered as CGE in this dataset, other studies suggest that the cell is of MGE origin because it expresses transcription factors such as LHX6 and NKX2-1, which are hallmark indicators of MGE-derived interneurons. Fate mapping experiments in mice have demonstrated that Lamp5+/Lhx6+ interneurons in both the hippocampus and neocortex arise from the MGE, and single-cell transcriptomic comparisons further show that primate neocortical Lamp5+/Lhx6+ cells closely resemble mouse hippocampal MGE-derived interneurons rather than classic CGE-derived types.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://zenodo.org/records/11165918") rdfs:comment obo:CL_4072022 "The marker set CHST9, LAMP5 can identify the Human cell type Lamp5 Lhx6 neuron in the neocortex with a confidence of 0.821678322 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072022 "Lamp5 Lhx6 GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072022 "Lamp5 Lhx6 GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072022 "Lamp5 Lhx6 GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072022 obo:CL_4042013) SubClassOf(obo:CL_4072022 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000203)) SubClassOf(obo:CL_4072022 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) @@ -34746,77 +34816,81 @@ SubClassOf(obo:CL_4072022 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000032148)) SubClassOf(obo:CL_4072022 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000032533)) SubClassOf(obo:CL_4072022 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000075)) -# Class: obo:CL_4072027 (sst GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072027 (sst GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072027 "sst interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072027 "sst interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") Annotation(oboInOwl:hasDbXref "PMID:33742131") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/9c63201d-bfd9-41a8-bbbc-18d947556f3d.cxg/") obo:IAO_0000115 obo:CL_4072027 "A transcriptomically distinct GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst). The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: MGE-derived interneurons', Author Categories: 'CrossArea_subclass', cluster Sst.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072027 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072027 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072027 "2025-08-12T10:45:41Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072027 "ILX:0770152") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30001424") oboInOwl:hasRelatedSynonym obo:CL_4072027 "SOM+ inhibitory interneuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33742131") oboInOwl:hasRelatedSynonym obo:CL_4072027 "SST+ IN (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30001424") oboInOwl:hasRelatedSynonym obo:CL_4072027 "somatostatin-expressing inhibitory interneuron (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30001424") oboInOwl:hasRelatedSynonym obo:CL_4072027 "SOM+ inhibitory interneuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33742131") oboInOwl:hasRelatedSynonym obo:CL_4072027 "SST+ IN (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30001424") oboInOwl:hasRelatedSynonym obo:CL_4072027 "somatostatin-expressing inhibitory interneuron (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072027 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072027 cl:cellxgene_subset) -AnnotationAssertion(rdfs:label obo:CL_4072027 "sst GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072027 "sst GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072027 "sst GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072027 obo:CL_4023017) SubClassOf(obo:CL_4072027 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072027 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000082)) -# Class: obo:CL_4072029 (pvalb GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072029 (pvalb GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072029 "pvalb interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072029 "pvalb interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/9c63201d-bfd9-41a8-bbbc-18d947556f3d.cxg/") obo:IAO_0000115 obo:CL_4072029 "A transcriptomically distinct GABAergic interneuron with a soma located in a cerebral cortex and it expresses Parvalbumin. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: MGE-derived interneurons', Author Categories: 'CrossArea_subclass', cluster Pvalb.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072029 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072029 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072029 "2025-08-12T14:31:10Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072029 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072029 cl:cellxgene_subset) -AnnotationAssertion(rdfs:label obo:CL_4072029 "pvalb GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072029 "pvalb GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072029 "pvalb GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072029 obo:CL_4023018) SubClassOf(obo:CL_4072029 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072029 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000080)) -# Class: obo:CL_4072031 (sst chodl GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072031 (sst chodl GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072031 "sst chodl interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072031 "sst chodl interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:15845086") Annotation(oboInOwl:hasDbXref "PMID:31209381") Annotation(oboInOwl:hasDbXref "PMID:33372656") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/9c63201d-bfd9-41a8-bbbc-18d947556f3d.cxg/") obo:IAO_0000115 obo:CL_4072031 "A transcriptomically distinct sst GABAergic interneuron that also expresses Chodl. These neurons are rare and correspond to the only known interneurons with long-range projection. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: MGE-derived interneurons', Author Categories: 'CrossArea_subclass', clusters Sst Chodl.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072031 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072031 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072031 "2025-09-04T10:20:07Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33372656") oboInOwl:hasBroadSynonym obo:CL_4072031 "long-range GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33372656") oboInOwl:hasBroadSynonym obo:CL_4072031 "long-range GABAergic interneuron (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072031 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072031 "The marker set NPY can identify the Human cell type sst chodl GABAergic interneuron in the neocortex with a confidence of 0.894026187 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072031 "sst chodl GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072031 "sst chodl GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072031 "sst chodl GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072031 obo:CL_4023121) SubClassOf(obo:CL_4072031 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072031 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000083)) -# Class: obo:CL_4072032 (VIP GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072032 (VIP GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072032 "VIP interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072032 "VIP interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33186530") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/e4ddac12-f48f-4455-8e8d-c2a48a683437.cxg/") obo:IAO_0000115 obo:CL_4072032 "A transcriptomically distinct GABAergic neuron that expresses the vasoactive intestinal polypeptide and that has its soma located in the forebrain. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: CGE-derived interneurons', Author Categories: 'CrossArea_subclass', cluster Vip.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072032 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072032 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072032 "2025-09-04T10:52:00Z"^^xsd:dateTime) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:26420784") Annotation(oboInOwl:hasDbXref "PMID:31210267") Annotation(oboInOwl:hasDbXref "PMID:33794534") Annotation(oboInOwl:hasDbXref "PMID:35221922") terms:description obo:CL_4072032 "This neuronal type is distinguished by its heterogeneous morphology and electrophysiological characteristics (Pronneke et al., 2015,2020; Apicella and Marchionni, 2022). Variations in morphology and firing patterns are observed in human VIP interneurons. In a study by Lee et al., 2023, four distinct subtypes of VIP neurons were identified, each exhibiting unique morphologies, soma locations, and electrophysiological properties. These subtypes are defined according to their transcriptomic markers: LBH-VIP and CCD184-VIP, both of which display a bipolar morphology with axons and dendrites extending across cortical layers; and SY16-VIP and ADAMTSL1-VIP, characterized by a dendritic arbor that spreads horizontally within the same layer as the soma (Lee et al., 2023). Disruption or malfunction of VIP interneuron is implicated in neurodevelopmental disorders such as Rett Syndrome and Dravet Syndrome (Goff and Goldberg 2021).") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072032 "ILX:0770151") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:36384143") oboInOwl:hasRelatedSynonym obo:CL_4072032 "VIP neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") oboInOwl:hasRelatedSynonym obo:CL_4072032 "VIP type (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33794534") oboInOwl:hasRelatedSynonym obo:CL_4072032 "VIP-IN (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ILX:0770151") oboInOwl:hasRelatedSynonym obo:CL_4072032 "Vip (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:36384143") oboInOwl:hasRelatedSynonym obo:CL_4072032 "VIP neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") oboInOwl:hasRelatedSynonym obo:CL_4072032 "VIP type (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33794534") oboInOwl:hasRelatedSynonym obo:CL_4072032 "VIP-IN (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ILX:0770151") oboInOwl:hasRelatedSynonym obo:CL_4072032 "Vip (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072032 cl:BDS_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072032 "The marker set VIP can identify the Human cell type VIP GABAergic interneuron in the neocortex with a confidence of 0.855531344 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072032 "VIP GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072032 "VIP GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072032 "VIP GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072032 obo:CL_4023016) SubClassOf(obo:CL_4072032 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072032 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_P01282)) SubClassOf(obo:CL_4072032 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000085)) -# Class: obo:CL_4072034 (lamp5 GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072034 (lamp5 GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072034 "Lamp5 interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072034 "Lamp5 interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30382198") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/e4ddac12-f48f-4455-8e8d-c2a48a683437.cxg/") obo:IAO_0000115 obo:CL_4072034 "A transcriptomically distinct GABAergic neuron located in the cerebral cortex that expresses Lamp5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: CGE-derived interneurons', Author Categories: 'CrossArea_subclass', clusters Lamp5.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072034 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072034 "https://orcid.org/0000-0002-5507-2103") @@ -34824,14 +34898,15 @@ AnnotationAssertion(terms:date obo:CL_4072034 "2025-09-04T14:48:07Z"^^xsd:dateTi AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072034 "ILX:0770149") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072034 cl:BDS_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072034 "The marker set LINC00298, KIT can identify the Human cell type lamp5 GABAergic interneuron in the neocortex with a confidence of 0.814687838 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072034 "lamp5 GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072034 "lamp5 GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072034 "lamp5 GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072034 obo:CL_4023011) SubClassOf(obo:CL_4072034 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072034 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000074)) -# Class: obo:CL_4072035 (sncg GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072035 (sncg GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072035 "sncg interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072035 "sncg interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33186530") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/e4ddac12-f48f-4455-8e8d-c2a48a683437.cxg/") obo:IAO_0000115 obo:CL_4072035 "A transcriptomically distinct GABAergic neuron located in the cerebral cortex that expresses Gamma-synuclein. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: CGE-derived interneurons', Author Categories: 'CrossArea_subclass', clusters Sncg.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072035 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072035 "https://orcid.org/0000-0002-5507-2103") @@ -34840,160 +34915,170 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072035 "ILX:0770150") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072035 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072035 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072035 "The marker set RXRG, THSD7B can identify the Human cell type sncg GABAergic interneuron in the neocortex with a confidence of 0.628943702 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072035 "sncg GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072035 "sncg GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072035 "sncg GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072035 obo:CL_4023015) SubClassOf(obo:CL_4072035 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072035 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_O76070)) SubClassOf(obo:CL_4072035 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000081)) -# Class: obo:CL_4072036 (PAX6 GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072036 (PAX6 GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072036 "Pax6 interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072036 "Pax6 interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/e4ddac12-f48f-4455-8e8d-c2a48a683437.cxg/") obo:IAO_0000115 obo:CL_4072036 "A transcriptomically distinct GABAergic neuron located in the cerebral cortex that expresses the transcript PAX6. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: CGE-derived interneurons', Author Categories: 'CrossArea_subclass', clusters PAX") AnnotationAssertion(obo:RO_0002175 obo:CL_4072036 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072036 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072036 "2025-09-10T08:47:34Z"^^xsd:dateTime) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072036 "The marker set RELN, HCRTR2 can identify the Human cell type PAX6 GABAergic interneuron in the neocortex with a confidence of 0.724125093 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072036 "PAX6 GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072036 "PAX6 GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072036 "PAX6 GABAergic interneuron (Homo sapiens)") SubClassOf(obo:CL_4072036 obo:CL_4042032) SubClassOf(obo:CL_4072036 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072036 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000079)) -# Class: obo:CL_4072037 (L2/3 intratelencephalic projecting glutamatergic neuron (Homo sapiens)) +# Class: obo:CL_4072037 (L2/3 intratelencephalic projecting glutamatergic neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072037 "L2/3 IT (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072037 "L2/3 IT (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25622573") Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/") obo:IAO_0000115 obo:CL_4072037 "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found between cortical layer 2-4. This intratelencephalic-projecting glutamatergic neuron has thin-tufted apical dendrites and extends its axonal projection into L5 in the neocortex. This neuronal type has a hyperpolarised resting membrane potential. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L2/3 IT.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072037 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072037 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072037 "2025-09-10T09:15:51Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072037 "ILX:0770156") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072037 "L2/3 IT (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072037 "L2/3 IT (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072037 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072037 "The marker set ONECUT2, COL5A2 can identify the Human cell type L2/3 intratelencephalic projecting glutamatergic neuron in the neocortex with a confidence of 0.670149932 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072037 "L2/3 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072037 "L2/3 intratelencephalic projecting glutamatergic neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072037 "L2/3 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") SubClassOf(obo:CL_4072037 obo:CL_4030059) SubClassOf(obo:CL_4072037 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072037 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000065)) -# Class: obo:CL_4072038 (L5 intratelencephalic projecting glutamatergic neuron (Homo sapiens)) +# Class: obo:CL_4072038 (L5 intratelencephalic projecting glutamatergic neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072038 "L5 IT (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072038 "L5 IT (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasDbXref "PMID:37609206") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/") obo:IAO_0000115 obo:CL_4072038 "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 5. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L5 IT.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072038 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072038 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072038 "2025-09-10T09:47:23Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072038 "ILX:0770157") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072038 "L5 IT (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072038 "L5 IT (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072038 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072038 "The marker set ARSJ, RORB, KCNK2 can identify the Human cell type L5 intratelencephalic projecting glutamatergic neuron in the neocortex with a confidence of 0.764261336 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072038 "L5 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072038 "L5 intratelencephalic projecting glutamatergic neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072038 "L5 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") SubClassOf(obo:CL_4072038 obo:CL_4030064) SubClassOf(obo:CL_4072038 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072038 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000068)) -# Class: obo:CL_4072039 (L4 intratelencephalic projecting glutamatergic neuron (Homo sapiens)) +# Class: obo:CL_4072039 (L4 intratelencephalic projecting glutamatergic neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072039 "L4 IT (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072039 "L4 IT (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/") obo:IAO_0000115 obo:CL_4072039 "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 3-4. This neuron type can have a pyramidal, star-pyramidal or spiny stellate morphology and projects its output to L2/3 and L5A/B. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L4 IT.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072039 obo:NCBITaxon_9606) AnnotationAssertion(terms:date obo:CL_4072039 "2025-09-10T10:05:26Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072039 "L4 IT (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072039 "L4 IT (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072039 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072039 "The marker set RORB, ST8SIA4 can identify the Human cell type L4 intratelencephalic projecting glutamatergic neuron in the neocortex with a confidence of 0.720108696 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072039 "L4 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072039 "L4 intratelencephalic projecting glutamatergic neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072039 "L4 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") SubClassOf(obo:CL_4072039 obo:CL_4030063) SubClassOf(obo:CL_4072039 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072039 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000066)) -# Class: obo:CL_4072040 (L6 intratelencephalic projecting Car3 glutamatergic neuron (Homo sapiens)) +# Class: obo:CL_4072040 (L6 intratelencephalic projecting Car3 glutamatergic neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072040 "L6 IT Car3 (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072040 "L6 IT Car3 (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "doi:10.1007/s00424-024-02923-2") Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.30.518285") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/") obo:IAO_0000115 obo:CL_4072040 "A transcriptomically distinct intratelencepalic-projecting glutamatergic neuron that expresses Car3 with a soma found in L6. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_cluster', L6 IT Car3.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072040 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072040 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072040 "2025-09-10T10:23:11Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.06.515349") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasExactSynonym obo:CL_4072040 "L6 IT Car3 glutamatergic neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.06.515349") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6 IT Car3 (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6 IT Car3 neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.30.518285") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6-IT-Car3 (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6-IT-Car3 cell (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.06.515349") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasExactSynonym obo:CL_4072040 "L6 IT Car3 glutamatergic neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.06.515349") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6 IT Car3 (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6 IT Car3 neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1101/2022.11.30.518285") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6-IT-Car3 (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072040 "L6-IT-Car3 cell (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072040 "The marker set SMYD1, THEMIS can identify the Human cell type L6 intratelencephalic projecting Car3 glutamatergic neuron in the neocortex with a confidence of 0.877752028 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072040 "L6 intratelencephalic projecting Car3 glutamatergic neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072040 "L6 intratelencephalic projecting Car3 glutamatergic neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072040 "L6 intratelencephalic projecting Car3 glutamatergic neuron (Homo sapiens)") SubClassOf(obo:CL_4072040 obo:CL_4030068) SubClassOf(obo:CL_4072040 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072040 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000072)) -# Class: obo:CL_4072041 (L6 intratelencephalic projecting glutamatergic neuron (Homo sapiens)) +# Class: obo:CL_4072041 (L6 intratelencephalic projecting glutamatergic neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072041 "L6 IT (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072041 "L6 IT (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasDbXref "PMID:37609206") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/c3aa4f95-7a18-4a7d-8dd8-ca324d714363.cxg/") obo:IAO_0000115 obo:CL_4072041 "A transcriptomically distinct intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: IT-projecting excitatory neurons', Author Categories: 'CrossArea_subclass', L6 IT.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072041 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072041 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072041 "2025-09-11T14:38:02Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072041 "ILX:0770158") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072041 "L6 IT (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072041 "L6 IT (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072041 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072041 "The marker set LINC00507, THEMIS can identify the Human cell type L6 intratelencephalic projecting glutamatergic neuron in the neocortex with a confidence of 0.641695703 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072041 "L6 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072041 "L6 intratelencephalic projecting glutamatergic neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072041 "L6 intratelencephalic projecting glutamatergic neuron (Homo sapiens)") SubClassOf(obo:CL_4072041 obo:CL_4030065) SubClassOf(obo:CL_4072041 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072041 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000071)) -# Class: obo:CL_4072042 (L5/6 near-projecting glutamatergic neuron (Homo sapiens)) +# Class: obo:CL_4072042 (L5/6 near-projecting glutamatergic neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072042 "L5/6 NP (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072042 "L5/6 NP (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasDbXref "PMID:37292694") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/d01c9dff-abd1-4825-bf30-2eb2ba74597e.cxg/") obo:IAO_0000115 obo:CL_4072042 "A transcriptomically defined near-projecting glutamatergic neuron with a soma found in cortical layer 5/6 in humans.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072042 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072042 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072042 "2025-09-16T08:55:09Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072042 "L5/6 NP (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072042 "L5/6 NP (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072042 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072042 "The marker set NPSR1-AS1, TLL1 can identify the Human cell type L5/6 near-projecting glutamatergic neuron in the neocortex with a confidence of 0.899288218 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072042 "L5/6 near-projecting glutamatergic neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072042 "L5/6 near-projecting glutamatergic neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072042 "L5/6 near-projecting glutamatergic neuron (Homo sapiens)") SubClassOf(obo:CL_4072042 obo:CL_4030067) SubClassOf(obo:CL_4072042 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072042 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000069)) -# Class: obo:CL_4072043 (L5 extratelencephalic projecting glutamatergic cortical neuron (Homo sapiens)) +# Class: obo:CL_4072043 (L5 extratelencephalic projecting glutamatergic cortical neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072043 "L5 ET glut (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072043 "L5 ET glut (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34616075") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/d01c9dff-abd1-4825-bf30-2eb2ba74597e.cxg/") obo:IAO_0000115 obo:CL_4072043 "A transcriptomically distinct glutamatergic neuron, with a soma found in the deeper portion of L5, that has long-range axonal projections including deep subcortical targets outside of the telencephalon and, in some cases, the spinal cord. While the L5 ET neuron projections are not limited to ET targets, they are clearly differentiated from the neuron subclasses whose projections are constrained to intratelencephalic (IT) targets. L5 ET neurons are generally the largest excitatory cortical neurons, typically having a thick apical dendrite with a prominent dendritic tuft in layer 1 and displaying burst-firing physiological characteristics. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: Deep layer (non-IT) excitatory neurons ', Author Categories: 'CrossArea_subclass', clusters L5 ET.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072043 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072043 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072043 "2025-09-16T09:26:37Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1016/j.neuron.2005.08.030") oboInOwl:hasBroadSynonym obo:CL_4072043 "subcerebral projection (SCPN) neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31626774") Annotation(rdfs:comment "pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord.") oboInOwl:hasExactSynonym obo:CL_4072043 "Pyramidal tract-like (PT-l) (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.3389/fncel.2011.00001") oboInOwl:hasExactSynonym obo:CL_4072043 "burst-firing layer 5 neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.3389/fncel.2015.00233") oboInOwl:hasExactSynonym obo:CL_4072043 "thick-tufted layer 5 (TTL5) pyramidal neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1038/nrn3469") oboInOwl:hasNarrowSynonym obo:CL_4072043 "pyramidal tract (PT) neuron (Homo sapiens)") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1016/j.neuron.2011.07.029") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072043 "L5b neuron (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1016/j.neuron.2005.08.030") oboInOwl:hasBroadSynonym obo:CL_4072043 "subcerebral projection (SCPN) neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31626774") Annotation(rdfs:comment "pyramidal tract-like is used because, unlike pyramidal tract neurons in the motor cortex, neurons in the structures like the auditory cortex do not project to the spinal cord.") oboInOwl:hasExactSynonym obo:CL_4072043 "Pyramidal tract-like (PT-l) (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.3389/fncel.2011.00001") oboInOwl:hasExactSynonym obo:CL_4072043 "burst-firing layer 5 neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.3389/fncel.2015.00233") oboInOwl:hasExactSynonym obo:CL_4072043 "thick-tufted layer 5 (TTL5) pyramidal neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1038/nrn3469") oboInOwl:hasNarrowSynonym obo:CL_4072043 "pyramidal tract (PT) neuron (Hsap)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1016/j.neuron.2011.07.029") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4072043 "L5b neuron (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072043 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072043 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072043 "The marker set CHST8, POU3F1 can identify the Human cell type L5 extratelencephalic projecting glutamatergic cortical neuron in the neocortex with a confidence of 0.815891473 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072043 "L5 extratelencephalic projecting glutamatergic cortical neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072043 "L5 extratelencephalic projecting glutamatergic cortical neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072043 "L5 extratelencephalic projecting glutamatergic cortical neuron (Homo sapiens)") SubClassOf(obo:CL_4072043 obo:CL_4023041) SubClassOf(obo:CL_4072043 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072043 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000067)) -# Class: obo:CL_4072044 (L6 corticothalamic-projecting glutamatergic cortical neuron (Homo sapiens)) +# Class: obo:CL_4072044 (L6 corticothalamic-projecting glutamatergic cortical neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072044 "L6 CT glut (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072044 "L6 CT glut (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34616075") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/d01c9dff-abd1-4825-bf30-2eb2ba74597e.cxg/") obo:IAO_0000115 obo:CL_4072044 "A transcriptomically distinct corticothalamic-projecting neuron with a soma found in cortical layer 6. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: Deep layer (non-IT) excitatory neurons', Author Categories: 'CrossArea_subclass', clusters L6 CT.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072044 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072044 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072044 "2025-09-16T09:42:20Z"^^xsd:dateTime) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:28625486") Annotation(oboInOwl:hasDbXref "PMID:34616075") oboInOwl:hasExactSynonym obo:CL_4072044 "L6 CT (Homo sapiens)") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:28625486") Annotation(oboInOwl:hasDbXref "PMID:34616075") oboInOwl:hasExactSynonym obo:CL_4072044 "L6 CT (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072044 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072044 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072044 "The marker set SEMA5B, ADAMTSL1, SULF1 can identify the Human cell type L6 corticothalamic-projecting glutamatergic cortical neuron in the neocortex with a confidence of 0.631898455 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072044 "L6 corticothalamic-projecting glutamatergic cortical neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072044 "L6 corticothalamic-projecting glutamatergic cortical neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072044 "L6 corticothalamic-projecting glutamatergic cortical neuron (Homo sapiens)") SubClassOf(obo:CL_4072044 obo:CL_4023042) SubClassOf(obo:CL_4072044 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072044 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000070)) -# Class: obo:CL_4072045 (L6b glutamatergic cortical neuron (Homo sapiens)) +# Class: obo:CL_4072045 (L6b glutamatergic cortical neuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072045 "L6b glut (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072045 "L6b glut (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1101/2020.10.19.34312") Annotation(oboInOwl:hasDbXref "PMID:30382198") Annotation(oboInOwl:hasDbXref "PMID:37824655") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/d01c9dff-abd1-4825-bf30-2eb2ba74597e.cxg/") obo:IAO_0000115 obo:CL_4072045 "A glutamatergic neuron with a soma found in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: Deep layer (non-IT) excitatory neuron', Author Categories: 'CrossArea_subclass', cluster L6b.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072045 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072045 "https://orcid.org/0000-0002-5507-2103") @@ -35001,23 +35086,26 @@ AnnotationAssertion(terms:date obo:CL_4072045 "2025-09-16T10:30:38Z"^^xsd:dateTi AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072045 "ILX:0770163") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072045 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072045 cl:cellxgene_subset) -AnnotationAssertion(rdfs:label obo:CL_4072045 "L6b glutamatergic cortical neuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072045 "L6b glutamatergic cortical neuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072045 "L6b glutamatergic cortical neuron (Homo sapiens)") SubClassOf(obo:CL_4072045 obo:CL_4023038) SubClassOf(obo:CL_4072045 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) -# Class: obo:CL_4072046 (chandelier pvalb GABAergic interneuron (Homo sapiens)) +# Class: obo:CL_4072046 (chandelier pvalb GABAergic interneuron (Hsap)) -AnnotationAssertion(obo:IAO_0000028 obo:CL_4072046 "chandelier PV interneuron (Homo sapiens)") +AnnotationAssertion(obo:IAO_0000028 obo:CL_4072046 "chandelier PV interneuron (Hsap)") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") Annotation(oboInOwl:hasDbXref "https://cellxgene.cziscience.com/e/9c63201d-bfd9-41a8-bbbc-18d947556f3d.cxg/") obo:IAO_0000115 obo:CL_4072046 "A transcriptomically definined chandelierl pvalb GABAergic interneuron in humans. The standard transcriptomic reference data for this cell type can be found on the CellxGene census under the collection: 'Transcriptomic cytoarchitecture reveals principles of human neocortex organization', dataset: 'Supercluster: CGE-derived interneurons', Author Categories: 'CrossArea_subclass', clusters Chandelier.") AnnotationAssertion(obo:RO_0002175 obo:CL_4072046 obo:NCBITaxon_9606) AnnotationAssertion(terms:contributor obo:CL_4072046 "https://orcid.org/0000-0002-5507-2103") AnnotationAssertion(terms:date obo:CL_4072046 "2025-09-29T10:07:47Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4072046 "ILX:0107356") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072046 "Chandelier PV (Homo sapiens)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072046 "Chandelier PV (Hsap)") AnnotationAssertion(oboInOwl:inSubset obo:CL_4072046 cl:BDS_subset) AnnotationAssertion(oboInOwl:inSubset obo:CL_4072046 cl:cellxgene_subset) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://doi.org/10.5281/zenodo.11165918") rdfs:comment obo:CL_4072046 "The marker set GPR149, CA8 can identify the Human cell type chandelier pvalb GABAergic cortical interneuron in the neocortex with a confidence of 0.799748111 (NS-Forest FBeta value).") -AnnotationAssertion(rdfs:label obo:CL_4072046 "chandelier pvalb GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(rdfs:label obo:CL_4072046 "chandelier pvalb GABAergic interneuron (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072046 "chandelier pvalb GABAergic interneuron (Homo sapiens)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4072046 "Chandelier PV (Homo sapiens)") SubClassOf(obo:CL_4072046 obo:CL_4023036) SubClassOf(obo:CL_4072046 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606)) SubClassOf(obo:CL_4072046 ObjectSomeValuesFrom(obo:RO_0015004 obo:CLM_1000063)) @@ -35076,7 +35164,8 @@ SubClassOf(obo:CL_7770005 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0006909)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25356439") Annotation(oboInOwl:hasDbXref "PMID:32341164") Annotation(oboInOwl:hasDbXref "PMID:39829808") obo:IAO_0000115 obo:CL_7770006 "A trabecular meshwork cell within the eye's trabecular meshwork. This cell is molecularly distinguished by TMEFF2 expression in humans. A beam B cell is spatially intermingled with beam A cells throughout the uveal and corneoscleral meshwork regions, but demonstrates a tendency to localise closer to the juxtacanalicular tissue.") AnnotationAssertion(terms:contributor obo:CL_7770006 ) AnnotationAssertion(terms:date obo:CL_7770006 "2025-09-15T08:48:01Z"^^xsd:dateTime) -AnnotationAssertion(rdfs:label obo:CL_7770006 "beam B cell, human") +AnnotationAssertion(rdfs:label obo:CL_7770006 "beam B cell (Hsap)") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_7770006 "beam B cell, human") AnnotationAssertion(Annotation(dc:license ) Annotation(oboInOwl:hasDbXref "PMID:35836364") Annotation(rdfs:comment "Trabecular meshwork (TM) structure. The TM consists of uveal (blue), corneoscleral (red), and juxtacanalicular (green) regions. TM beam cells (blue/red) line the uveal and corneoscleral regions, while JCT cells (green) occupy the juxtacanalicular region.") foaf:depiction obo:CL_7770006 "http://purl.obolibrary.org/obo/cl/images/Trabecular_meshowk_cells_PMID35836364.jpg") SubClassOf(obo:CL_7770006 obo:CL_0002367) SubClassOf(obo:CL_7770006 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606))