diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 0f4f53b01..b741f051b 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -2458,9 +2458,7 @@ Declaration(Class(obo:CL_4023015)) Declaration(Class(obo:CL_4023016)) Declaration(Class(obo:CL_4023017)) Declaration(Class(obo:CL_4023018)) - Declaration(Class(obo:CL_4023019)) - Declaration(Class(obo:CL_4023022)) Declaration(Class(obo:CL_4023023)) Declaration(Class(obo:CL_4023024)) @@ -2471,24 +2469,11 @@ Declaration(Class(obo:CL_4023030)) Declaration(Class(obo:CL_4023031)) Declaration(Class(obo:CL_4023034)) Declaration(Class(obo:CL_4023036)) - - - - - -Declaration(Class(obo:CL_4023040)) - Declaration(Class(obo:CL_4023038)) - - - +Declaration(Class(obo:CL_4023040)) Declaration(Class(obo:CL_4023041)) - - Declaration(Class(obo:CL_4023042)) - - - +Declaration(Class(obo:CL_4023051)) Declaration(Class(obo:CP_0000000)) Declaration(Class(obo:CP_0000025)) Declaration(Class(obo:CP_0000027)) @@ -27446,7 +27431,6 @@ SubClassOf(obo:CL_4023007 obo:CL_0000099) SubClassOf(obo:CL_4023007 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956)) SubClassOf(obo:CL_4023007 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090)) SubClassOf(obo:CL_4023007 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534)) - SubClassOf(obo:CL_4023007 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_P32648)) # Class: obo:CL_4023008 (intratelencephalic-projecting glutamatergic cortical neuron) @@ -27471,7 +27455,6 @@ AnnotationAssertion(rdfs:label obo:CL_4023009 "extratelencephalic-projecting glu SubClassOf(obo:CL_4023009 obo:CL_0000679) SubClassOf(obo:CL_4023009 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956)) - # Class: obo:CL_4023010 (alpha7 Lamp5 GABAergic cortical interneuron (Mus musculus)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30413647") Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023010 "A Lamp5 GABAergic cortical interneuron that is strongly labelled for α7 nAChRs. These cells are located in L1 and have multipolar dendrites with vertically descending axonal collaterals that project deep into the column, usually branching and terminating in L5A. Unlike typical Lamp5 electrophysiology, they have Vip- and Sst-like firing properties, with active depolarizing hump at near-threshold membrane potentials, and larger hyperpolarization sag, stronger burst, and rebound firing.") @@ -27561,7 +27544,6 @@ AnnotationAssertion(oboInOwl:created_by obo:CL_4023018 ) AnnotationAssertion(rdfs:label obo:CL_4023018 "pvalb GABAergic cortical interneuron") - EquivalentClasses(obo:CL_4023018 ObjectIntersectionOf(obo:CL_0000099 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534) ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000013502))) # Class: obo:CL_4023019 (L5/6 CCK and Vip expressing cortical GABAergic interneuron (Mus musculus)) @@ -27577,7 +27559,6 @@ SubClassOf(obo:CL_4023019 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_1009 SubClassOf(obo:CL_4023019 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534)) SubClassOf(obo:CL_4023019 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_P32648)) - # Class: obo:CL_4023022 (canopy Lamp5 GABAergic cortical interneuron (Mus musculus)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30413647") obo:IAO_0000115 obo:CL_4023022 "A Lamp5 GABAergic cortical interneuron that has extended axons in the surface of L1. Canopy Lamp5 cells resemble neurogliaform cells in having elongated horizontal axonal arbors largely confined to L1; but the dendritic arbors are wider and have fewer branches, while the axon is less tortuous and extends further from the soma") @@ -27601,10 +27582,8 @@ SubClassOf(obo:CL_4023023 obo:CL_0000099) SubClassOf(obo:CL_4023023 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956)) SubClassOf(obo:CL_4023023 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090)) SubClassOf(obo:CL_4023023 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534)) - SubClassOf(obo:CL_4023023 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_Q9D387)) - # Class: obo:CL_4023024 (Neurogliaform Lamp5 GABAergic cortical interneuron (Mus musculus)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") obo:IAO_0000115 obo:CL_4023024 "A Lamp5 GABAergic cortical interneuron with layer-adapting morphology. NGC Lamp5 cells have a small round soma, short dendrites, and a wide dense axonal arbor that tends to establish a dense axonal mesh with high connection probability both to themselves and L2 pyramidal cells. NGC Lamp5 cells have unique synaptic properties that distinguish them from other GABAergic interneurons, including the release of GABA to the extracellular space via volume transmission, and the ability to produce GABA-B responses in connected postsynaptic targets.") @@ -27616,10 +27595,8 @@ SubClassOf(obo:CL_4023024 obo:CL_0000099) SubClassOf(obo:CL_4023024 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956)) SubClassOf(obo:CL_4023024 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090)) SubClassOf(obo:CL_4023024 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534)) - SubClassOf(obo:CL_4023024 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_Q9D387)) - # Class: obo:CL_4023025 (Long-range projecting Sst GABAergic cortical interneuron (Mus musculus)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:26727548") obo:IAO_0000115 obo:CL_4023025 "A Sst GABAergic cortical interneuron that is both an interneuron and a projecting neuron. They are found in all layers from upper L2/3 down to the bottom of L6. They have long-range projections, some with axons fading into white matter. These cells have low rebound potential, low hyperpolarization sag, and high variability in membrane time constant.") @@ -27712,8 +27689,15 @@ SubClassOf(obo:CL_4023036 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_1009 SubClassOf(obo:CL_4023036 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534)) SubClassOf(obo:CL_4023036 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_P32848)) +# Class: obo:CL_4023038 (L6b glutamatergic cortical neuron) - +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1101/2020.10.19.34312") Annotation(oboInOwl:hasDbXref "PMID:30382198") obo:IAO_0000115 obo:CL_4023038 "A glutamatergic neuron located in cortical layer 6b. They are transcriptomically related to corticothalamic-projecting neurons but have differential projections to the thalamus or anterior cingulate.") +AnnotationAssertion( obo:CL_4023038 ) +AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023038 "ILX:0770163") +AnnotationAssertion(oboInOwl:inSubset obo:CL_4023038 ) +AnnotationAssertion(rdfs:label obo:CL_4023038 "L6b glutamatergic cortical neuron") +SubClassOf(obo:CL_4023038 obo:CL_0000679) +SubClassOf(obo:CL_4023038 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956)) # Class: obo:CL_4023040 (L2/3-6 intratelencephalic projecting glutamatergic cortical neuron) @@ -27723,7 +27707,8 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023040 "L2/3-6 IT projectin AnnotationAssertion(oboInOwl:inSubset obo:CL_4023040 ) AnnotationAssertion(rdfs:label obo:CL_4023040 "L2/3-6 intratelencephalic projecting glutamatergic cortical neuron") SubClassOf(obo:CL_4023040 obo:CL_4023008) - +SubClassOf(obo:CL_4023040 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384)) +SubClassOf(obo:CL_4023040 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090)) # Class: obo:CL_4023041 (L5 extratelencephalic projecting glutamatergic cortical neuron) @@ -27738,7 +27723,6 @@ AnnotationAssertion(oboInOwl:inSubset obo:CL_4023041 obo:CL_4023038 ) -AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023038 "ILX:0770163") -AnnotationAssertion(oboInOwl:inSubset obo:CL_4023038 ) -AnnotationAssertion(rdfs:label obo:CL_4023038 "L6b glutamatergic cortical neuron") -SubClassOf(obo:CL_4023038 obo:CL_0000679) -SubClassOf(obo:CL_4023038 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956)) - +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023051 "An intratelencephalic-projecting glutamatergic neuron that is located in the boundary between L2/3 and L5 of the primary motor cortex. These cells have diverse morphologies with some pyramidal and some stellate cells.") +AnnotationAssertion( obo:CL_4023051 ) +AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023051 "ILX:0770172") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023051 "L4 IT MOp (Mus)") +AnnotationAssertion(oboInOwl:inSubset obo:CL_4023051 ) +AnnotationAssertion(rdfs:label obo:CL_4023051 "L4 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)") +SubClassOf(obo:CL_4023051 obo:CL_4023040) # Class: obo:CP_0000000 (neutrophillic cytoplasm) @@ -27857,4 +27838,4 @@ SubClassOf(obo:D96882F1-8709-49AB-BCA9-772A67EA6C33 obo:GO_0005634) SubClassOf(Annotation(oboInOwl:hasDbXref ) ObjectIntersectionOf(obo:CL_0000540 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_7742)) ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000031)) -) +) \ No newline at end of file