diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 6841f1ad9..6b8f4b274 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -24,7 +24,6 @@ Prefix(ncbitaxon:=) Ontology( Import() Import() -Import() Import() Import() Import() @@ -4275,7 +4274,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000065 "BTO:0001724") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000065 "FMA:70550") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.53347/rID-51713") oboInOwl:hasNarrowSynonym obo:CL_0000065 "ependymocyte") AnnotationAssertion(rdfs:label obo:CL_0000065 "ependymal cell") -EquivalentClasses(obo:CL_0000065 ObjectIntersectionOf(obo:CL_0000066 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004670))) +EquivalentClasses(obo:CL_0000065 ObjectIntersectionOf(obo:CL_0000710 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004670))) SubClassOf(obo:CL_0000065 obo:CL_0000125) SubClassOf(obo:CL_0000065 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0005929)) SubClassOf(obo:CL_0000065 ObjectSomeValuesFrom(obo:RO_0002207 obo:CL_0000681)) @@ -5136,7 +5135,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "Wikipedia:Chief_cell") oboInO AnnotationAssertion(rdfs:label obo:CL_0000155 "peptic cell") SubClassOf(obo:CL_0000155 obo:CL_0000154) SubClassOf(obo:CL_0000155 obo:CL_0002178) -SubClassOf(obo:CL_0000155 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001276)) SubClassOf(obo:CL_0000155 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0010038)) # Class: obo:CL_0000156 (obsolete antibody secreting cell) @@ -5203,7 +5201,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:29263912") Annotation(ob AnnotationAssertion(rdfs:label obo:CL_0000162 "parietal cell") SubClassOf(obo:CL_0000162 obo:CL_0000151) SubClassOf(obo:CL_0000162 obo:CL_0002178) -SubClassOf(obo:CL_0000162 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001276)) SubClassOf(obo:CL_0000162 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0010038)) SubClassOf(obo:CL_0000162 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0005902)) SubClassOf(obo:CL_0000162 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0001696)) @@ -7902,16 +7899,16 @@ SubClassOf(obo:CL_0000509 obo:CL_0000167) # Class: obo:CL_0000510 (paneth cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:0517223651") Annotation(oboInOwl:hasDbXref "MESH:D019879") Annotation(oboInOwl:hasDbXref "PMID:29184701") Annotation(oboInOwl:hasDbXref "PMID:32308658") Annotation(oboInOwl:hasDbXref "PMID:33484640") obo:IAO_0000115 obo:CL_0000510 "An epithelial cell found in the basal part of the intestinal glands (crypts of Lieberkuhn) including the appendix. Paneth cells synthesize and secrete lysozyme and cryptdins. Numerous in the deeper parts of the intestinal crypts, particularly in the duodenum, rich in zinc, contain large acidophilic granules, with irregular apical microvilli and prominent membrane-bound vacuoles containing matrix.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:0517223651") Annotation(oboInOwl:hasDbXref "MESH:D019879") Annotation(oboInOwl:hasDbXref "PMID:29184701") Annotation(oboInOwl:hasDbXref "PMID:32308658") obo:IAO_0000115 obo:CL_0000510 "An epithelial cell found in the basal part of the intestinal glands (crypts of Lieberkuhn) including the appendix. Paneth cells synthesize and secrete lysozyme and cryptdins. Numerous in the deeper parts of the intestinal crypts, particularly in the duodenum, rich in zinc, contain large acidophilic granules, with irregular apical microvilli and prominent membrane-bound vacuoles containing matrix.") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000510 "BTO:0000993") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000510 "FMA:62897") AnnotationAssertion(rdfs:label obo:CL_0000510 "paneth cell") SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000510 obo:CL_0000066) SubClassOf(obo:CL_0000510 obo:CL_0000323) -SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0011184)) +SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001277)) +SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001983)) SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0005773)) SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0005902)) -SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_4047017)) # Class: obo:CL_0000511 (androgen binding protein secreting cell) @@ -15356,15 +15353,14 @@ AnnotationAssertion(rdfs:label obo:CL_0002144 "capillary endothelial cell") EquivalentClasses(obo:CL_0002144 ObjectIntersectionOf(obo:CL_0000071 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001915))) SubClassOf(obo:CL_0002144 obo:CL_0002653) -# Class: obo:CL_0002145 (multiciliated columnar cell of tracheobronchial tree) +# Class: obo:CL_0002145 (ciliated columnar cell of tracheobronchial tree) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "PMID:28400610") obo:IAO_0000115 obo:CL_0002145 "A multi-ciliated epithelial cell located in the trachea and bronchi, characterized by a columnar shape and motile cilia on its apical surface. These cilia facilitate mucociliary clearance by moving mucus and trapped particles toward the pharynx.") AnnotationAssertion(terms:contributor obo:CL_0002145 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002145 "2010-08-24T03:38:29Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002145 "FMA:70542") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002145 "ciliated columnar cell of tracheobronchial tree") AnnotationAssertion(Annotation(oboInOwl:hasDbXref ) Annotation(oboInOwl:hasDbXref "PMID:25386990") rdfs:comment obo:CL_0002145 "These cells possess numerous cilia on their surface, typically ranging from 200 to 300 per cell. The cilia vary in length, measuring between 6 to 7 μm in the upper airways (trachea) and becoming shorter, around 4 μm, in the smaller airways (terminal bronchioles). These cells form a two-layered 'coat' in the airway: the lower 'sol' layer is watery, allowing the cilia to beat in coordinated waves, while the upper 'gel' layer is thick and sticky, trapping inhaled particles.") -AnnotationAssertion(rdfs:label obo:CL_0002145 "multiciliated columnar cell of tracheobronchial tree") +AnnotationAssertion(rdfs:label obo:CL_0002145 "ciliated columnar cell of tracheobronchial tree") EquivalentClasses(obo:CL_0002145 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008397) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0031514) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) SubClassOf(obo:CL_0002145 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002209)) @@ -15724,7 +15720,7 @@ AnnotationAssertion(terms:contributor obo:CL_0002180 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002332 "2010-09-20T02:21:12Z"^^xsd:dateTime) -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002332 "ciliated epithelial cell of the bronchus") -AnnotationAssertion(rdfs:label obo:CL_0002332 "multiciliated epithelial cell of the bronchus") +AnnotationAssertion(rdfs:label obo:CL_0002332 "ciliated cell of the bronchus") EquivalentClasses(obo:CL_0002332 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002031) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0031514) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) # Class: obo:CL_0002333 (neural crest derived adipocyte) @@ -17758,15 +17748,14 @@ AnnotationAssertion(rdfs:label obo:CL_0002367 "trabecular meshwork cell") EquivalentClasses(obo:CL_0002367 ObjectIntersectionOf(obo:CL_0000115 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0005969))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0002367 obo:CL_0000115) -# Class: obo:CL_0002368 (respiratory tract epithelial cell) +# Class: obo:CL_0002368 (respiratory epithelial cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo:CL_0002368 "An epithelial cell of the respiratory tract epithelium. These cells have an endodermal origin.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo:CL_0002368 "An endo-epithelial cell of the respiratory tract.") AnnotationAssertion(terms:contributor obo:CL_0002368 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002368 "2010-09-23T04:38:49Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002368 "BTO:0004533") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002368 "airway epithelial cell") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002368 "respiratory epithelial cell") -AnnotationAssertion(rdfs:label obo:CL_0002368 "respiratory tract epithelial cell") +AnnotationAssertion(rdfs:label obo:CL_0002368 "respiratory epithelial cell") EquivalentClasses(obo:CL_0002368 ObjectIntersectionOf(obo:CL_0000066 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004802))) SubClassOf(obo:CL_0002368 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000223)) @@ -17779,14 +17768,13 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002369 "MESH:D013172") AnnotationAssertion(rdfs:label obo:CL_0002369 "fungal spore") SubClassOf(obo:CL_0002369 obo:CL_0000521) -# Class: obo:CL_0002370 (respiratory tract goblet cell) +# Class: obo:CL_0002370 (respiratory goblet cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:0721662544") obo:IAO_0000115 obo:CL_0002370 "A simple columnar epithelial cell that secretes mucin. Rough endoplasmic reticulum, mitochondria, the nucleus, and other organelles are concentrated in the basal portion. The apical plasma membrane projects microvilli to increase surface area for secretion.") AnnotationAssertion(terms:contributor obo:CL_0002370 ) AnnotationAssertion(oboInOwl:creation_date obo:CL_0002370 "2010-09-23T04:42:27Z"^^xsd:dateTime) -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0002370 "respiratory goblet cell") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "MP:0010863") oboInOwl:hasExactSynonym obo:CL_0002370 "respiratory mucosa goblet cells") -AnnotationAssertion(rdfs:label obo:CL_0002370 "respiratory tract goblet cell") +AnnotationAssertion(rdfs:label obo:CL_0002370 "respiratory goblet cell") EquivalentClasses(obo:CL_0002370 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004802))) SubClassOf(obo:CL_0002370 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004802)) @@ -18746,10 +18734,6 @@ AnnotationAssertion(terms:contributor obo:CL_0002466 ) EquivalentClasses(obo:CL_0002466 ObjectIntersectionOf(obo:CL_0002465 ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001010) ObjectSomeValuesFrom(obo:RO_0002104 obo:GO_0042613) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001006) ObjectSomeValuesFrom(obo:RO_0015016 obo:PR_000001013))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0002466 obo:CL_0002465) @@ -20330,7 +20314,6 @@ AnnotationAssertion(terms:contributor obo:CL_0002634 ) EquivalentClasses(obo:CL_0009006 ObjectIntersectionOf(obo:CL_0000164 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002108))) -SubClassOf(obo:CL_0009006 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_0009007 (gastrointestinal tract (lamina propria) macrophage of small intestine) @@ -23033,10 +23007,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009012 "transit amplifying AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009012 "transit-amplifying cell of small intestine") AnnotationAssertion(oboInOwl:inSubset obo:CL_0009012 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009012 "transit amplifying cell of small intestine") -AnnotationAssertion(Annotation(dc:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine , including the crypts of Lieberkhun (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_0009012 ) EquivalentClasses(obo:CL_0009012 ObjectIntersectionOf(obo:CL_4047017 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001241))) SubClassOf(obo:CL_0009012 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002250)) @@ -23088,10 +23058,6 @@ AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_0009017 "crypt stem cell of AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009017 "stem cell of small intestine crypt of Lieberkuhn") AnnotationAssertion(oboInOwl:inSubset obo:CL_0009017 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009017 "intestinal crypt stem cell of small intestine") -AnnotationAssertion(Annotation(dc:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine, including the crypts of Lieberkuhn (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_0009017 ) EquivalentClasses(obo:CL_0009017 ObjectIntersectionOf(obo:CL_0002250 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001241))) # Class: obo:CL_0009018 (lymphocyte of large intestine lamina propria) @@ -23178,7 +23144,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009026 "enterocyte of vermi AnnotationAssertion(oboInOwl:inSubset obo:CL_0009026 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009026 "enterocyte of appendix") EquivalentClasses(obo:CL_0009026 ObjectIntersectionOf(obo:CL_0000584 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001154))) -SubClassOf(obo:CL_0009026 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0009697)) # Class: obo:CL_0009027 (transit amplifying cell of appendix) @@ -23226,7 +23191,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009030 "enteroendocrine cel AnnotationAssertion(oboInOwl:inSubset obo:CL_0009030 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009030 "enteroendocrine cell of appendix") EquivalentClasses(obo:CL_0009030 ObjectIntersectionOf(obo:CL_1001516 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001154))) -SubClassOf(obo:CL_0009030 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0009697)) # Class: obo:CL_0009031 (T cell of appendix) @@ -23354,7 +23318,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009042 "colon enteroendocri AnnotationAssertion(oboInOwl:inSubset obo:CL_0009042 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009042 "enteroendocrine cell of colon") EquivalentClasses(obo:CL_0009042 ObjectIntersectionOf(obo:CL_0000164 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001155))) -SubClassOf(obo:CL_0009042 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000397)) # Class: obo:CL_0009043 (intestinal crypt stem cell of colon) @@ -23377,10 +23340,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009044 "small intestine lam AnnotationAssertion(oboInOwl:inSubset obo:CL_0009044 pato:location_grouping) AnnotationAssertion(rdfs:comment obo:CL_0009044 "This is a general grouping term created for use in the EMBL-EBI Single Cell Expression Atlas anatomograms. Please use a more specific cell type term for annotation if possible, given the information available to you.") AnnotationAssertion(rdfs:label obo:CL_0009044 "lymphocyte of small intestine lamina propria") -AnnotationAssertion(Annotation(dc:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine, including the crypts of Lieberkuhn (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_0009044 ) EquivalentClasses(obo:CL_0009044 ObjectIntersectionOf(obo:CL_0000542 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001238))) # Class: obo:CL_0009045 (B cell of medullary sinus of lymph node) @@ -23475,7 +23434,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009054 "M cell of anorectum AnnotationAssertion(oboInOwl:inSubset obo:CL_0009054 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009054 "microfold cell of epithelium proper of anorectum") EquivalentClasses(obo:CL_0009054 ObjectIntersectionOf(obo:CL_0000682 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_8410050))) -SubClassOf(obo:CL_0009054 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_0009055 (paneth cell of anorectum) @@ -23485,7 +23443,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009055 "anorectum paneth ce AnnotationAssertion(oboInOwl:inSubset obo:CL_0009055 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009055 "paneth cell of anorectum") EquivalentClasses(obo:CL_0009055 ObjectIntersectionOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_8410050))) -SubClassOf(obo:CL_0009055 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_0009056 (transit amplifying cell of anorectum) @@ -23564,7 +23521,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009063 "anorectum enteroend AnnotationAssertion(oboInOwl:inSubset obo:CL_0009063 pato:location_grouping) AnnotationAssertion(rdfs:label obo:CL_0009063 "enteroendocrine cell of anorectum") EquivalentClasses(obo:CL_0009063 ObjectIntersectionOf(obo:CL_0000164 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_8410050))) -SubClassOf(obo:CL_0009063 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_0009064 (lymph node paracortex T cell) @@ -23728,12 +23684,7 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009080 "brush cell of epith AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009080 "brush cell of small intestine") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0009080 "tuft cell of epithelium of small intestine") AnnotationAssertion(rdfs:label obo:CL_0009080 "tuft cell of small intestine") -AnnotationAssertion(Annotation(terms:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine, including the crypts of Lieberkuhn (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_0009080 ) EquivalentClasses(obo:CL_0009080 ObjectIntersectionOf(obo:CL_0019032 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002108))) -SubClassOf(obo:CL_0009080 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_0009081 (specified double negative thymocyte (Homo sapiens)) @@ -25013,13 +24964,12 @@ EquivalentClasses(obo:CL_0019029 ObjectIntersectionOf(obo:CL_0000182 ObjectSomeV # Class: obo:CL_0019031 (intestine goblet cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1996606") Annotation(oboInOwl:hasDbXref "PMID:24942678") Annotation(oboInOwl:hasDbXref "PMID:33484640") obo:IAO_0000115 obo:CL_0019031 "Goblet cells reside throughout the length of the small and large intestine and are responsible for the production and maintenance of the protective mucus blanket by synthesizing and secreting high-molecular-weight glycoproteins known as mucins. Human intestinal goblet cells secrete the MUC2 mucin, as well as a number of typical mucus components: CLCA1, FCGBP, AGR2, ZG16, and TFF3.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1996606") Annotation(oboInOwl:hasDbXref "PMID:24942678") obo:IAO_0000115 obo:CL_0019031 "Goblet cells reside throughout the length of the small and large intestine and are responsible for the production and maintenance of the protective mucus blanket by synthesizing and secreting high-molecular-weight glycoproteins known as mucins. Human intestinal goblet cells secrete the MUC2 mucin, as well as a number of typical mucus components: CLCA1, FCGBP, AGR2, ZG16, and TFF3.") AnnotationAssertion(terms:contributor obo:CL_0019031 ) AnnotationAssertion(terms:date obo:CL_0019031 "2020-10-14T14:59:07Z"^^xsd:dateTime) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1996606") oboInOwl:hasExactSynonym obo:CL_0019031 "intestinal goblet cell") AnnotationAssertion(rdfs:label obo:CL_0019031 "intestine goblet cell"@en) EquivalentClasses(obo:CL_0019031 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001277))) -SubClassOf(obo:CL_0019031 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_4047017)) # Class: obo:CL_0019032 (intestinal tuft cell) @@ -25029,7 +24979,6 @@ AnnotationAssertion(terms:date obo:CL_0019032 "2020-10-15T12:47:46Z"^^xsd:dateTi AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22527717") oboInOwl:hasExactSynonym obo:CL_0019032 "intestinal brush cell") AnnotationAssertion(rdfs:label obo:CL_0019032 "intestinal tuft cell"@en) EquivalentClasses(obo:CL_0019032 ObjectIntersectionOf(obo:CL_0002204 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001277))) -SubClassOf(obo:CL_0019032 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002250)) # Class: obo:CL_0700009 (obsolete kidney collecting duct beta-intercalated cell) @@ -25145,7 +25094,7 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:15153415") obo:IAO_00001 AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:15153415") oboInOwl:hasBroadSynonym obo:CL_1000222 "DES cell") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:15153415") oboInOwl:hasBroadSynonym obo:CL_1000222 "diffuse endocrine system cell") AnnotationAssertion(rdfs:label obo:CL_1000222 "stomach neuroendocrine cell") -EquivalentClasses(obo:CL_1000222 ObjectIntersectionOf(obo:CL_0000165 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001276))) +EquivalentClasses(obo:CL_1000222 ObjectIntersectionOf(obo:CL_0000165 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000945))) SubClassOf(obo:CL_1000222 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0046717)) # Class: obo:CL_1000223 (pulmonary neuroendocrine cell) @@ -25175,11 +25124,10 @@ EquivalentClasses(obo:CL_1000239 ObjectIntersectionOf(obo:CL_0000125 ObjectSomeV AnnotationAssertion(rdfs:label obo:CL_1000245 "posterior lateral line ganglion neuron") EquivalentClasses(obo:CL_1000245 ObjectIntersectionOf(obo:CL_2000032 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_2001314))) -# Class: obo:CL_1000271 (lung multiciliated epithelial cell) +# Class: obo:CL_1000271 (lung ciliated cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27864314") obo:IAO_0000115 obo:CL_1000271 "An epithelial cell that is part of the lung epithelium. This cell is characterised by the presence of cilia on its apical surface.") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000271 "lung ciliated cell") -AnnotationAssertion(rdfs:label obo:CL_1000271 "lung multiciliated epithelial cell") +AnnotationAssertion(rdfs:label obo:CL_1000271 "lung ciliated cell") EquivalentClasses(obo:CL_1000271 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000115) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0031514) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) # Class: obo:CL_1000272 (lung secretory cell) @@ -25201,10 +25149,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000275 "FMA:15050") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "FMA:15050") oboInOwl:hasExactSynonym obo:CL_1000275 "non-striated muscle fiber of small intestine") AnnotationAssertion(rdfs:label obo:CL_1000275 "smooth muscle cell of small intestine") -AnnotationAssertion(Annotation(dc:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine, including the crypts of Lieberkuhn (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_1000275 ) EquivalentClasses(obo:CL_1000275 ObjectIntersectionOf(obo:CL_0002504 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002108))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000275 obo:CL_0002504) @@ -25216,7 +25160,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "FMA:15058") oboInOwl:hasExact AnnotationAssertion(rdfs:label obo:CL_1000276 "smooth muscle fiber of duodenum") EquivalentClasses(obo:CL_1000276 ObjectIntersectionOf(obo:CL_1000275 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002114))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000276 obo:CL_1000275) -SubClassOf(obo:CL_1000276 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000277 (smooth muscle fiber of jejunum) @@ -25235,7 +25178,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "FMA:15066") oboInOwl:hasExact AnnotationAssertion(rdfs:label obo:CL_1000278 "smooth muscle fiber of ileum") EquivalentClasses(obo:CL_1000278 ObjectIntersectionOf(obo:CL_1000275 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002116))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000278 obo:CL_1000275) -SubClassOf(obo:CL_1000278 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000279 (smooth muscle cell of large intestine) @@ -25254,7 +25196,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "FMA:15663") oboInOwl:hasExact AnnotationAssertion(rdfs:label obo:CL_1000280 "smooth muscle cell of colon") EquivalentClasses(obo:CL_1000280 ObjectIntersectionOf(obo:CL_0002504 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001155))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000280 obo:CL_0002504) -SubClassOf(obo:CL_1000280 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_1000281 (smooth muscle cell of cecum) @@ -25265,7 +25206,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000281 "smooth muscle fiber AnnotationAssertion(rdfs:label obo:CL_1000281 "smooth muscle cell of cecum") EquivalentClasses(obo:CL_1000281 ObjectIntersectionOf(obo:CL_0000192 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001153))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000281 obo:CL_0000192) -SubClassOf(obo:CL_1000281 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_1000282 (smooth muscle fiber of ascending colon) @@ -25312,7 +25252,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000286 "smooth muscle fiber AnnotationAssertion(rdfs:label obo:CL_1000286 "smooth muscle cell of rectum") EquivalentClasses(obo:CL_1000286 ObjectIntersectionOf(obo:CL_0000192 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001052))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000286 obo:CL_0002504) -SubClassOf(obo:CL_1000286 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_1000287 (myocyte of anterior internodal tract) @@ -25533,7 +25472,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000314 "FMA:263038") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000314 "goblet cell of epithelium of gastric cardiac gland") AnnotationAssertion(rdfs:label obo:CL_1000314 "gastric cardiac gland goblet cell") EquivalentClasses(obo:CL_1000314 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008859))) -SubClassOf(obo:CL_1000314 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001276)) SubClassOf(obo:CL_1000314 ObjectSomeValuesFrom(obo:BFO_0000050 ObjectIntersectionOf(obo:UBERON_0000483 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008859)))) # Class: obo:CL_1000315 (principal gastric gland goblet cell) @@ -25544,7 +25482,6 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000315 "goblet cell of epit AnnotationAssertion(rdfs:label obo:CL_1000315 "principal gastric gland goblet cell") EquivalentClasses(obo:CL_1000315 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0009971))) SubClassOf(obo:CL_1000315 obo:CL_1000313) -SubClassOf(obo:CL_1000315 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001276)) # Class: obo:CL_1000316 (obsolete goblet cell of epithelium of small intestine) @@ -25561,7 +25498,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000317 "FMA:263046") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000317 "goblet cell of epithelium of intestinal villus") AnnotationAssertion(rdfs:label obo:CL_1000317 "intestinal villus goblet cell") EquivalentClasses(obo:CL_1000317 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0013636))) -SubClassOf(obo:CL_1000317 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000318 (obsolete small intestine crypt goblet cell) @@ -25609,7 +25545,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000323 "FMA:263061") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000323 "goblet cell of epithelium of pyloric gland") AnnotationAssertion(rdfs:label obo:CL_1000323 "pyloric gastric gland goblet cell") EquivalentClasses(obo:CL_1000323 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008861))) -SubClassOf(obo:CL_1000323 ObjectSomeValuesFrom(obo:BFO_0000050 ObjectIntersectionOf(obo:UBERON_0001276 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008861)))) +SubClassOf(obo:CL_1000323 ObjectSomeValuesFrom(obo:BFO_0000050 ObjectIntersectionOf(obo:UBERON_0000483 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008861)))) # Class: obo:CL_1000324 (duodenal goblet cell) @@ -25618,7 +25554,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000324 "FMA:263063") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000324 "goblet cell of epithelium proper of duodenum") AnnotationAssertion(rdfs:label obo:CL_1000324 "duodenal goblet cell") EquivalentClasses(obo:CL_1000324 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008346))) -SubClassOf(obo:CL_1000324 ObjectIntersectionOf(obo:CL_0000000 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902))) # Class: obo:CL_1000325 (jejunal goblet cell) @@ -25635,7 +25570,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000326 "FMA:263067") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_1000326 "goblet cell of epithelium proper of ileum") AnnotationAssertion(rdfs:label obo:CL_1000326 "ileal goblet cell") EquivalentClasses(obo:CL_1000326 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008345))) -SubClassOf(obo:CL_1000326 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000327 (appendix goblet cell) @@ -25694,10 +25628,6 @@ EquivalentClasses(obo:CL_1000333 ObjectIntersectionOf(obo:CL_0000313 ObjectSomeV AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo:CL_1000334 "An enterocyte that is part of the epithelium of small intestine.") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000334 "FMA:263086") AnnotationAssertion(rdfs:label obo:CL_1000334 "enterocyte of epithelium of small intestine") -AnnotationAssertion(Annotation(dc:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine, including the crypts of Lieberkuhn (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_1000334 ) EquivalentClasses(obo:CL_1000334 ObjectIntersectionOf(obo:CL_0000584 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000334 obo:CL_0000584) @@ -25709,7 +25639,6 @@ AnnotationAssertion(rdfs:label obo:CL_1000335 "enterocyte of epithelium of intes EquivalentClasses(obo:CL_1000335 ObjectIntersectionOf(obo:CL_0000584 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0013636))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000335 obo:CL_0000584) SubClassOf(obo:CL_1000335 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001213)) -SubClassOf(obo:CL_1000335 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000336 (obo:CL_1000336) @@ -25723,7 +25652,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000337 "FMA:263092") AnnotationAssertion(rdfs:label obo:CL_1000337 "enterocyte of epithelium of duodenal gland") EquivalentClasses(obo:CL_1000337 ObjectIntersectionOf(obo:CL_0000584 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001212))) -SubClassOf(obo:CL_1000337 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000338 (enterocyte of epithelium of crypt of Lieberkuhn of small intestine) @@ -25746,7 +25674,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000340 "FMA:263098") AnnotationAssertion(rdfs:label obo:CL_1000340 "enterocyte of epithelium proper of duodenum") SubClassOf(obo:CL_1000340 obo:CL_1000339) -SubClassOf(obo:CL_1000340 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) SubClassOf(obo:CL_1000340 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002114)) # Class: obo:CL_1000341 (enterocyte of epithelium proper of jejunum) @@ -25768,10 +25695,6 @@ SubClassOf(obo:CL_1000342 obo:CL_1000339) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo:CL_1000343 "A paneth cell that is part of the epithelium of small intestine.") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000343 "FMA:263104") AnnotationAssertion(rdfs:label obo:CL_1000343 "paneth cell of epithelium of small intestine") -AnnotationAssertion(Annotation(dc:license "http://creativecommons.org/licenses/by/4.0/") Annotation(rdfs:comment "Figure depicts a cross section of intestinal villi in the small intestine , including the crypts of Lieberkuhn (seen here as ‘crypt’), as well as the layer specific locations of cells that exist within the gastrointestinal tract. Layers depicted here include epithelium (rows of cells bordering villus), submucosa (white space below the epithelium containing networks of neurons and ganglia depicted in pink), muscularis mucosae (blue layer), muscularis propria (referred to here as muscle layer). - -ISC: Intestinal Stem Cell -TA: Transit Amplifying Cells") foaf:depiction obo:CL_1000343 ) EquivalentClasses(obo:CL_1000343 ObjectIntersectionOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902))) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000343 obo:CL_0000510) SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000343 obo:CL_0002254) @@ -25868,7 +25791,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000354 "FMA:263130") AnnotationAssertion(rdfs:label obo:CL_1000354 "microfold cell of epithelium of intestinal villus") EquivalentClasses(obo:CL_1000354 ObjectIntersectionOf(obo:CL_0000682 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001213))) SubClassOf(obo:CL_1000354 obo:CL_0000682) -SubClassOf(obo:CL_1000354 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) SubClassOf(obo:CL_1000354 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0013636)) # Class: obo:CL_1000355 (microfold cell of epithelium proper of small intestine) @@ -25885,7 +25807,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000356 "FMA:263134") AnnotationAssertion(rdfs:label obo:CL_1000356 "microfold cell of epithelium proper of duodenum") EquivalentClasses(obo:CL_1000356 ObjectIntersectionOf(obo:CL_0000682 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002114))) SubClassOf(obo:CL_1000356 obo:CL_0000682) -SubClassOf(obo:CL_1000356 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) SubClassOf(obo:CL_1000356 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008346)) # Class: obo:CL_1000357 (microfold cell of epithelium proper of jejunum) @@ -25903,7 +25824,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000358 "FMA:263138") AnnotationAssertion(rdfs:label obo:CL_1000358 "microfold cell of epithelium proper of ileum") EquivalentClasses(obo:CL_1000358 ObjectIntersectionOf(obo:CL_0000682 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002116))) SubClassOf(obo:CL_1000358 obo:CL_0000682) -SubClassOf(obo:CL_1000358 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) # Class: obo:CL_1000359 (microfold cell of epithelium proper of appendix) @@ -26510,7 +26430,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000438 "FMA:70562") AnnotationAssertion(rdfs:label obo:CL_1000438 "epithelial cell of wall of inferior part of anal canal") SubClassOf(obo:CL_1000438 obo:CL_0002634) -SubClassOf(obo:CL_1000438 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_1000439 (obo:CL_1000439) @@ -27958,7 +27877,6 @@ SubClassOf(obo:CL_1001516 ObjectSomeValuesFrom(obo:RO_0002207 obo:CL_4052006)) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "MP:0010803") obo:IAO_0000115 obo:CL_1001517 "The various hormone- or neurotransmitter-secreting cells present throughout the mucosa of the stomach.") AnnotationAssertion(rdfs:label obo:CL_1001517 "stomach enteroendocrine cell") EquivalentClasses(obo:CL_1001517 ObjectIntersectionOf(obo:CL_0000164 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000945))) -SubClassOf(obo:CL_1001517 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001276)) # Class: obo:CL_1001561 (vomeronasal sensory neuron) @@ -28173,7 +28091,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1001589 "CALOHA:TS-1275") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CALOHA:TS-1275") oboInOwl:hasNarrowSynonym obo:CL_1001589 "duodenum glandular cells") AnnotationAssertion(rdfs:label obo:CL_1001589 "duodenum secretory cell") EquivalentClasses(obo:CL_1001589 ObjectIntersectionOf(obo:CL_1100001 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002114))) -SubClassOf(obo:CL_1001589 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001902)) SubClassOf(obo:CL_1001589 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008346)) # Class: obo:CL_1001590 (epididymis secretory cell) @@ -29291,8 +29208,7 @@ AnnotationAssertion(terms:contributor obo:CL_3000000 ) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:11532718") Annotation(oboInOwl:hasDbXref "PMID:30083593") Annotation(oboInOwl:hasDbXref "PMID:38739251") rdfs:comment obo:CL_4023068 "Abnormalities in glutametergic neurons of the thalamic complex are associated with pathologies such as schizophrenia, colorectal visceral pain and Parkinson's disease.") AnnotationAssertion(rdfs:label obo:CL_4023068 "thalamic excitatory neuron") EquivalentClasses(obo:CL_4023068 ObjectIntersectionOf(obo:CL_0000540 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0010225) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061535))) @@ -30974,15 +30889,14 @@ SubClassOf(obo:CL_4030006 obo:CL_1001591) SubClassOf(obo:CL_4030006 obo:CL_4052019) SubClassOf(obo:CL_4030006 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0003889)) -# Class: obo:CL_4030007 (fallopian tube multiciliated cell) +# Class: obo:CL_4030007 (fallopian tube ciliated cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:16565155") Annotation(oboInOwl:hasDbXref "https://www.proteinatlas.org/humanproteome/tissue/fallopian+tube") obo:IAO_0000115 obo:CL_4030007 "A multi-ciliated epithelial cell that is part of the fallopian tube, mainly found on the apex of the mucosal folds. This cell exhibits a columnar shape with an oval nucleus and is characterized by the presence of cilia on its surface. The coordinated beating of these cilia, together with peristaltic contractions, contributes to the self-propulsion of spermatozoa, the transport of ovum during ovulation and the transport of the fertilized ovum to the intramural fallopian tube.") AnnotationAssertion(terms:contributor obo:CL_4030007 ) AnnotationAssertion(terms:date obo:CL_4030007 "2022-03-08T12:40:19Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_4030007 "oviduct ciliated cell") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030007 "fallopian tube ciliated cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030007 "uterine tube ciliated epithelial cell") -AnnotationAssertion(rdfs:label obo:CL_4030007 "fallopian tube multiciliated cell") +AnnotationAssertion(rdfs:label obo:CL_4030007 "fallopian tube ciliated cell") SubClassOf(obo:CL_4030007 obo:CL_0005012) SubClassOf(obo:CL_4030007 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0003889)) SubClassOf(obo:CL_4030007 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0007589)) @@ -31123,13 +31037,12 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:10559635") rdfs:comment AnnotationAssertion(rdfs:label obo:CL_4030022 "renal medullary fibroblast") EquivalentClasses(obo:CL_4030022 ObjectIntersectionOf(obo:CL_0000057 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0005211))) -# Class: obo:CL_4030023 (respiratory tract hillock cell) +# Class: obo:CL_4030023 (respiratory hillock cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref ) Annotation(oboInOwl:hasDbXref "PMID:30069044") Annotation(oboInOwl:hasDbXref "PMID:32726565") Annotation(oboInOwl:hasDbXref "PMID:33442032") obo:IAO_0000115 obo:CL_4030023 "A hillock cell that is located in respiratory epithelium. In some mammalian species, this cell type has been noted to express KRT13 and KRT4 and is postulated to play a role in squamous barrier function and immunomodulation.") AnnotationAssertion(terms:date obo:CL_4030023 "2022-06-06T08:31:09Z"^^xsd:dateTime) -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030023 "hillock cell of respiratory tract") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030023 "respiratory hillock cell") -AnnotationAssertion(rdfs:label obo:CL_4030023 "respiratory tract hillock cell") +AnnotationAssertion(oboInOwl:hasNarrowSynonym obo:CL_4030023 "hillock cell of respiratory tract") +AnnotationAssertion(rdfs:label obo:CL_4030023 "respiratory hillock cell") EquivalentClasses(obo:CL_4030023 ObjectIntersectionOf(obo:CL_4030024 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004802))) # Class: obo:CL_4030024 (hillock cell) @@ -31218,16 +31131,15 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25311230") rdfs:comment AnnotationAssertion(rdfs:label obo:CL_4030033 "valve endothelial cell") EquivalentClasses(obo:CL_4030033 ObjectIntersectionOf(obo:CL_0000115 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000946))) -# Class: obo:CL_4030034 (respiratory tract multiciliated cell) +# Class: obo:CL_4030034 (respiratory ciliated cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:18757316") Annotation(oboInOwl:hasDbXref "PMID:21364219") Annotation(oboInOwl:hasDbXref "PMID:34044844") Annotation(oboInOwl:hasDbXref "PMID:37834236") obo:IAO_0000115 obo:CL_4030034 "A multiciliated epithelial cell located in the respiratory tract epithelium, characterized by a columnar shape and motile cilia on its apical surface. This cell develops through a highly orchestrated process, transitioning from a basal progenitor via an intermediate deuterosomal cell stage that generates centrioles essential for ciliogenesis.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:18757316") Annotation(oboInOwl:hasDbXref "PMID:21364219") obo:IAO_0000115 obo:CL_4030034 "A multi-ciliated epithelial cell located in the respiratory tract epithelium, characterized by a columnar shape and motile cilia on its apical surface.") AnnotationAssertion(terms:date obo:CL_4030034 "2023-01-25T11:06:01Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "ciliated cell of the respiratory tract") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "respiratory ciliated cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "respiratory multiciliated cell") AnnotationAssertion(rdfs:label obo:CL_4030034 "respiratory tract multiciliated cell") EquivalentClasses(obo:CL_4030034 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004802) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0031514) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) -SubClassOf(obo:CL_4030034 ObjectSomeValuesFrom(obo:RO_0002207 obo:CL_4033044)) # Class: obo:CL_4030035 (dental pulp stem cell) @@ -31284,34 +31196,31 @@ AnnotationAssertion(rdfs:label obo:CL_4030039 "von Economo neuron") SubClassOf(obo:CL_4030039 obo:CL_4023009) SubClassOf(obo:CL_4030039 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0070006)) -# Class: obo:CL_4030040 (endometrial multiciliated epithelial cell) +# Class: obo:CL_4030040 (endometrial ciliated epithelial cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31290979") Annotation(oboInOwl:hasDbXref "PMID:37999981") Annotation(oboInOwl:hasDbXref "doi:10.1016/j.coemr.2024.100503") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41591-020-1040-z") Annotation(oboInOwl:hasDbXref "https://www.proteinatlas.org/humanproteome/single+cell+type/Glandular+epithelial+cells#endometrialciliatedcells") obo:IAO_0000115 obo:CL_4030040 "A multi-ciliated cell of the endometrial epithelium. This cell is characterized by the presence of 9+2 motile cilia on its apical surface, which facilitates the movement of mucus across the endometrial surface.") AnnotationAssertion(terms:date obo:CL_4030040 "2023-02-09T11:25:14Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_4030040 "ciliated cell of the uterus") AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_4030040 "uterine ciliated cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030040 "ciliated cell of the endometrium") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030040 "endometrial ciliated epithelial cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030040 "endometrium ciliated epithelial cell") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ttps://www.nature.com/articles/s41591-020-1040-z") rdfs:comment obo:CL_4030040 "In human samples, the expression of FOXJ1 protein, a regulator for motile cilia with epithelial lineage identity, has been noted.") -AnnotationAssertion(rdfs:label obo:CL_4030040 "endometrial multiciliated epithelial cell") -EquivalentClasses(obo:CL_4030040 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004811) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0097729) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) +AnnotationAssertion(rdfs:label obo:CL_4030040 "endometrial ciliated epithelial cell") +EquivalentClasses(obo:CL_4030040 ObjectIntersectionOf(obo:CL_0005012 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004811) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0097729))) -# Class: obo:CL_4030041 (luminal endometrial multiciliated epithelial cell) +# Class: obo:CL_4030041 (luminal endometrial ciliated epithelial cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41591-020-1040-z") obo:IAO_0000115 obo:CL_4030041 "A ciliated cell of the endometrial luminal epithelium. This cell is characterized by the presence of motile cilia on its apical surface.") AnnotationAssertion(terms:date obo:CL_4030041 "2023-02-09T11:34:42Z"^^xsd:dateTime) -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030041 "luminal endometrial ciliated epithelial cell") -AnnotationAssertion(rdfs:label obo:CL_4030041 "luminal endometrial multiciliated epithelial cell") +AnnotationAssertion(rdfs:label obo:CL_4030041 "luminal endometrial ciliated epithelial cell") SubClassOf(obo:CL_4030041 obo:CL_4030040) SubClassOf(obo:CL_4030041 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0011949)) -# Class: obo:CL_4030042 (glandular endometrial multiciliated epithelial cell) +# Class: obo:CL_4030042 (glandular endometrial ciliated epithelial cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41591-020-1040-z") obo:IAO_0000115 obo:CL_4030042 "A ciliated cell of the endometrial glandular epithelium. This cell is characterized by the presence of motile cilia on its apical surface.") AnnotationAssertion(terms:date obo:CL_4030042 "2023-02-09T11:37:30Z"^^xsd:dateTime) -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030042 "glandular endometrial ciliated epithelial cell") -AnnotationAssertion(rdfs:label obo:CL_4030042 "glandular endometrial multiciliated epithelial cell") +AnnotationAssertion(rdfs:label obo:CL_4030042 "glandular endometrial ciliated epithelial cell") SubClassOf(obo:CL_4030042 obo:CL_4030040) SubClassOf(obo:CL_4030042 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0012276)) @@ -31642,7 +31551,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:10715339") Annotation(ob AnnotationAssertion(terms:contributor obo:CL_4033004 ) AnnotationAssertion(rdfs:label obo:CL_4033004 "smooth muscle cell of taenia coli") EquivalentClasses(obo:CL_4033004 ObjectIntersectionOf(obo:CL_0000192 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0012419))) -SubClassOf(obo:CL_4033004 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_4033005 (serous secreting cell of bronchus submucosal gland) @@ -31692,7 +31600,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24997029") obo:IAO_00001 AnnotationAssertion(terms:contributor obo:CL_4033011 ) AnnotationAssertion(rdfs:label obo:CL_4033011 "smooth muscle cell of large intestine smooth muscle circular layer") EquivalentClasses(obo:CL_4033011 ObjectIntersectionOf(obo:CL_0000192 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0012398))) -SubClassOf(obo:CL_4033011 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_4033012 (smooth muscle cell of large intestine smooth muscle longitudinal layer) @@ -31700,7 +31607,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24997029") obo:IAO_00001 AnnotationAssertion(terms:contributor obo:CL_4033012 ) AnnotationAssertion(rdfs:label obo:CL_4033012 "smooth muscle cell of large intestine smooth muscle longitudinal layer") EquivalentClasses(obo:CL_4033012 ObjectIntersectionOf(obo:CL_0000192 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0012399))) -SubClassOf(obo:CL_4033012 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001278)) # Class: obo:CL_4033013 (suprabasal keratinocyte) @@ -32074,14 +31980,13 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:32032773") oboInOwl:hasE AnnotationAssertion(rdfs:label obo:CL_4033047 "OFF midget ganglion cell") EquivalentClasses(obo:CL_4033047 ObjectIntersectionOf(obo:CL_4023033 obo:CL_4023188)) -# Class: obo:CL_4033048 (respiratory tract suprabasal cell) +# Class: obo:CL_4033048 (respiratory suprabasal cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25564622") Annotation(oboInOwl:hasDbXref "PMID:34044844") Annotation(oboInOwl:hasDbXref "PMID:35387001") Annotation(oboInOwl:hasDbXref "PMID:37834236") obo:IAO_0000115 obo:CL_4033048 "A respiratory epithelial cell derived from a basal cell, with a topographic nuclear position between the basal and luminal cells of the airway epithelium. This non-basal, intermediate progenitor cell has limited proliferative capacity and can differentiate into multiciliated, secretory, or rare airway cells (ionocytes, tuft cells, neuroendocrine cells). It shares some ultrastructural features with basal cells but lacks the defined characteristics of fully differentiated cellular phenotypes.") AnnotationAssertion(terms:contributor obo:CL_4033048 ) AnnotationAssertion(terms:contributor obo:CL_4033048 ) AnnotationAssertion(terms:date obo:CL_4033048 "2023-06-20T10:44:30Z"^^xsd:dateTime) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25564622") oboInOwl:hasExactSynonym obo:CL_4033048 "respiratory parabasal cell") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4033048 "respiratory suprabasal cell") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25658372") oboInOwl:hasExactSynonym obo:CL_4033048 "respiratory suprabasal progenitor cell") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25658372") Annotation(oboInOwl:hasDbXref "PMID:32726565") Annotation(oboInOwl:hasDbXref "doi:10.1101/2023.04.20.537495") rdfs:comment obo:CL_4033048 "In humans, respiratory tract suprabasal cells have been noted to have enriched expression of the following: CK8, KRT13, IVL, and SERPINB3. Single-cell sequencing indicates that suprabasal cells derived from the nasal epithelium are distinct from those in the tracheobronchial epithelium.") AnnotationAssertion(rdfs:label obo:CL_4033048 "respiratory tract suprabasal cell") @@ -32152,14 +32057,13 @@ AnnotationAssertion(terms:date obo:CL_4033054 "2023-08-22T13:40:28Z"^^xsd:dateTi AnnotationAssertion(rdfs:label obo:CL_4033054 "perivascular cell") EquivalentClasses(obo:CL_4033054 ObjectIntersectionOf(obo:CL_0000000 ObjectSomeValuesFrom(obo:RO_0002220 obo:UBERON_0002049))) -# Class: obo:CL_4033055 (airway submucosal gland duct multiciliated cell) +# Class: obo:CL_4033055 (airway submucosal gland duct ciliated cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17707699") Annotation(oboInOwl:hasDbXref "PMID:30864819") obo:IAO_0000115 obo:CL_4033055 "A multi-ciliated epithelial cell located in ciliated duct of an airway submucosal gland, characterized by a columnar shape and motile cilia on its apical surface.") AnnotationAssertion(terms:contributor obo:CL_4033055 ) AnnotationAssertion(terms:contributor obo:CL_4033055 ) AnnotationAssertion(terms:date obo:CL_4033055 "2023-09-08T10:32:27Z"^^xsd:dateTime) -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4033055 "airway submucosal gland duct ciliated cell") -AnnotationAssertion(rdfs:label obo:CL_4033055 "airway submucosal gland duct multiciliated cell") +AnnotationAssertion(rdfs:label obo:CL_4033055 "airway submucosal gland duct ciliated cell") EquivalentClasses(obo:CL_4033055 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_8410077) ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_8600014) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0031514) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) # Class: obo:CL_4033056 (onychocyte) @@ -32641,7 +32545,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:19279265") Annotation(ob AnnotationAssertion(rdfs:label obo:CL_4042007 "protoplasmic astrocyte"@en) SubClassOf(obo:CL_4042007 obo:CL_0002605) SubClassOf(obo:CL_4042007 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001950)) -SubClassOf(obo:CL_4042007 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001950)) # Class: obo:CL_4042008 (fibrous astrocyte) @@ -32652,7 +32555,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:28280934") rdfs:comment AnnotationAssertion(rdfs:label obo:CL_4042008 "fibrous astrocyte"@en) SubClassOf(obo:CL_4042008 obo:CL_0000127) SubClassOf(obo:CL_4042008 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002316)) -SubClassOf(obo:CL_4042008 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0002316)) # Class: obo:CL_4042009 (interlaminar astrocyte) @@ -32663,7 +32565,6 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30552685") Annotation(ob AnnotationAssertion(rdfs:label obo:CL_4042009 "interlaminar astrocyte"@en) SubClassOf(obo:CL_4042009 obo:CL_0002605) SubClassOf(obo:CL_4042009 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001950)) -SubClassOf(obo:CL_4042009 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001950)) # Class: obo:CL_4042010 (pial interlaminar astrocyte) @@ -33201,7 +33102,6 @@ AnnotationAssertion(terms:contributor obo:CL_4047051