diff --git a/dpo.obo b/dpo.obo index 01a5619..b8d4390 100644 --- a/dpo.obo +++ b/dpo.obo @@ -1,6 +1,6 @@ format-version: 1.2 -data-version: dpo/releases/2024-06-13 -date: 13:06:2024 12:35 +data-version: dpo/releases/2024-08-08 +date: 08:08:2024 12:59 subsetdef: abnormal_slim "Abnormal/normal slim" subsetdef: absent_slim "Absent/present slim" subsetdef: attribute_slim "Attribute slim" @@ -47,7 +47,7 @@ property_value: dc:description "An ontology for the description of Drosophila me property_value: dc:title "Drosophila Phenotype Ontology (DPO)" xsd:string property_value: IAO:0000700 FBcv:0000347 property_value: ns:attributionURL "http://dx.doi.org/10.1186/2041-1480-4-30" xsd:string -property_value: owl:versionInfo "2024-06-13" xsd:string +property_value: owl:versionInfo "2024-08-08" xsd:string property_value: terms:license "https://creativecommons.org/licenses/by/4.0/" xsd:string [Term] @@ -857,7 +857,7 @@ is_a: FBcv:0000671 ! abnormal cell cycle id: FBcv:0000432 name: abnormal mitotic cell cycle namespace: phenotypic_class -def: "Phenotype that is any abnormality in mitotic cell cycle (GO:0000278). 'mitotic cell cycle' is defined as: 'Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.'" [FBC:DOS, GOC:mah, ISBN:0815316194, Reactome:69278] +def: "Phenotype that is any abnormality in mitotic cell cycle (GO:0000278). 'mitotic cell cycle' is defined as: 'Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.'" [FBC:DOS, GOC:mah, ISBN:0815316194] synonym: "mitotic" RELATED [] synonym: "mitotic cell cycle defective" EXACT [] is_a: FBcv:0000671 ! abnormal cell cycle diff --git a/src/ontology/imports/merged_import.owl b/src/ontology/imports/merged_import.owl index b9c46d0..7767f2d 100644 --- a/src/ontology/imports/merged_import.owl +++ b/src/ontology/imports/merged_import.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2024-06-13") + +Annotation(owl:versionInfo "2024-08-08") Declaration(Class()) Declaration(Class()) @@ -427,9 +427,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -446,6 +443,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -470,7 +468,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -491,7 +488,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -516,9 +512,9 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -526,20 +522,13 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -576,6 +565,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -586,8 +576,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -608,15 +596,13 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) +Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -963,7 +949,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -976,7 +961,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -5132,8 +5116,8 @@ AnnotationAssertion( "envoPolar") AnnotationAssertion(rdfs:label "atmospheric boundary layer") EquivalentClasses( ObjectIntersectionOf(ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )) ObjectSomeValuesFrom( ))) +SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -5144,9 +5128,7 @@ AnnotationAssertion(rdfs:comment AnnotationAssertion(rdfs:label "planetary surface") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectUnionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( ObjectUnionOf( ))) # Class: (aquatic layer) @@ -5804,7 +5786,6 @@ AnnotationAssertion(rdfs:label "l EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) -SubClassOf( ) # Class: (solid surface layer) @@ -5989,8 +5970,9 @@ AnnotationAssertion( "http://sweetontology.net/phenCryo/Accumulation") AnnotationAssertion(rdfs:label "snow and ice accumulation process"@en) EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (mass of ice and snow) @@ -6001,7 +5983,8 @@ AnnotationAssertion( "mass of ice and snow"@en) EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ObjectIntersectionOf( )))) SubClassOf( ) -SubClassOf( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ))) @@ -6022,7 +6005,7 @@ AnnotationAssertion( "fluid surface layer"@en) EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ObjectUnionOf( )))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( ObjectUnionOf( ))) +SubClassOf( ) # Class: (fluid interface layer) @@ -6030,8 +6013,8 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion(rdfs:label "fluid interface layer"@en) EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ObjectUnionOf( )))) +SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( ObjectUnionOf( ))) # Class: (fluid layer) @@ -6055,7 +6038,6 @@ AnnotationAssertion( ) AnnotationAssertion(rdfs:label "gaseous front"@en) EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -6091,8 +6073,6 @@ AnnotationAssertion( "gaseous surface layer"@en) EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ) -SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (interface layer) @@ -6838,7 +6818,8 @@ SubClassOf( (embryo) -AnnotationAssertion(Annotation( "FlyBase:FBrf0039741") Annotation( "FlyBase:FBrf0041814") ".") +AnnotationAssertion(Annotation( "FlyBase:FBrf0039741") Annotation( "FlyBase:FBrf0089570") "An organism that is undergoing embryogenesis (Campos-Ortega and Hartenstein, 1997). Embryogenesis begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997).") +AnnotationAssertion( "FBdv:00005289") AnnotationAssertion( "UBERON:0000922") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000052") @@ -6849,11 +6830,10 @@ SubClassOf( (cleavage stage embryo) -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "A collective term for stages 1-4.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0064803") Annotation( "FlyBase:FBrf0089570") "Embryo that is in the cleavage stage, which encompasses the first 13 rapid divisions after fertilization, corresponding to embryonic stages 1-4, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface, to form the syncitial blastoderm (Campos-Ortega and Hartenstein, 1997). They then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997).") +AnnotationAssertion( "FBdv:00000054") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000054") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "cleavage stage embryo") SubClassOf( ) @@ -6902,98 +6882,100 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (embryonic tagma) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any tagma (FBbt:00000002) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any tagma of the embryo.") AnnotationAssertion( "UBERON:6000137") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000137") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic tagma") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (embryonic segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any segment (FBbt:00000003) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any segment of the embryo.") AnnotationAssertion( "UBERON:6000154") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000154") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (embryonic head) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any head (FBbt:00000004) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any head of the embryo.") AnnotationAssertion( "UBERON:0008816") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000155") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic head") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (embryonic ocular segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any ocular segment (FBbt:00000005) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any ocular segment of the embryo.") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "embryonic acron") AnnotationAssertion( "FBbt:00000156") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic ocular segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (embryonic head segment) -AnnotationAssertion(Annotation( "FlyBase:FBrf0075072") "Any segment (FBbt:00000003) that is part of some embryonic head (FBbt:00000155).") +AnnotationAssertion(Annotation( "FlyBase:FBrf0075072") "Any head segment of the embryo.") AnnotationAssertion( "UBERON:6000157") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000157") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic head segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (embryonic procephalic segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any procephalic segment (FBbt:00000007) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any procephalic segment of the embryo.") AnnotationAssertion( "UBERON:6000158") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000158") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic procephalic segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (embryonic labral segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any labral segment (FBbt:00000008) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any labral segment of the embryo.") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000159") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic labral segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (embryonic antennal segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any antennal segment (FBbt:00000009) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any antennal segment of the embryo.") AnnotationAssertion( "UBERON:6000160") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00000160") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic antennal segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) @@ -7014,18 +6996,18 @@ SubClassOf( ObjectSomeValuesFrom(< SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic/larval apodeme) +# Class: (larval apodeme) -AnnotationAssertion(Annotation( "FBC:SPR") Annotation( "FlyBase:FBrf0089570") "Apodeme that is part of the embryo/larva. Apodemes are not a continuous structure, but are split into two halves. In the embryo, this break is visible laterally. In the larva, the dorsal and ventral halves in the thoracic and abdominal segments are staggered, with the dorsal part being posterior to the ventral one.") -AnnotationAssertion( "larval apodeme") +AnnotationAssertion(Annotation( "FBC:SPR") Annotation( "FlyBase:FBrf0089570") "Apodeme that is part of the late embryo/larva. Apodemes are not a continuous structure, but are split into two halves. In the embryo, this break is visible laterally. In the larva, the dorsal and ventral halves in the thoracic and abdominal segments are staggered, with the dorsal part being posterior to the ventral one.") +AnnotationAssertion( "embryonic/larval apodeme") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001005") AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic/larval apodeme") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +AnnotationAssertion(rdfs:label "larval apodeme") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (presumptive embryonic/larval nervous system) @@ -7129,56 +7111,6 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic supraesophageal neuromere) - -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-1373-1705") "Neuromere of the embryonic supraesophageal ganglion, anterior to the subesophageal ganglion.") -AnnotationAssertion( "VFB:FBbt_00001062") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00001062") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic supraesophageal neuromere") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (embryonic protocerebrum) - -AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") "Protocerebrum of the embryo. It is the most anterior of the supraesophageal neuromeres, located anterior to the deutocerebral neuromere. It is derived from the labral and ocular segments.") -AnnotationAssertion( "FBbt:00001926") -AnnotationAssertion( "VFB:FBbt_00001066") -AnnotationAssertion(Annotation( "FlyBase:FBrf0084032") "neuromere b1") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion(Annotation( "FlyBase:FBrf0045366") "procephalic lobe") -AnnotationAssertion( "FBbt:00001066") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic protocerebrum") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (embryonic deutocerebrum) - -AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") Annotation( "FlyBase:FBrf0161020") "Deutocerebrum of the embryo. It is the middle one of the three supraesophageal neuromeres, posterior to the protocerebrum and anterior to the tritocerebrum. It is part of the antennal segment.") -AnnotationAssertion( "FBbt:00001958") -AnnotationAssertion( "VFB:FBbt_00001067") -AnnotationAssertion( "embryonic deuterocerebral neuromere") -AnnotationAssertion( "embryonic deuterocerebrum") -AnnotationAssertion( "embryonic deutocerebral neuromere") -AnnotationAssertion(Annotation( "FlyBase:FBrf0084032") "neuromere b2") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00001067") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic deutocerebrum") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (embryonic imaginal tissue) AnnotationAssertion(Annotation( "FlyBase:FBrf0064789") "Embryonic structure that will develop into a larval imaginal tissue, which will later form an adult structure (Cohen, 1993).") @@ -7189,7 +7121,7 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "embryonic imaginal tissue") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) @@ -7240,107 +7172,109 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (larval tagma) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any tagma (FBbt:00000002) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any tagma of the larva.") AnnotationAssertion( "UBERON:6001728") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001728") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval tagma") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (larval segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any segment (FBbt:00000003) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any segment of the larva.") AnnotationAssertion( "UBERON:6001729") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001729") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (larval head) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any head (FBbt:00000004) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any head of the larva.") AnnotationAssertion( "UBERON:6001730") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001730") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval head") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (larval ocular segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any ocular segment (FBbt:00000005) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any ocular segment of the larva.") AnnotationAssertion( "UBERON:6001731") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "larval acron") AnnotationAssertion( "FBbt:00001731") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval ocular segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (larval head segment) -AnnotationAssertion(Annotation( "FlyBase:FBrf0075072") "Any segment (FBbt:00000003) that is part of some larval head (FBbt:00001730).") +AnnotationAssertion(Annotation( "FlyBase:FBrf0075072") "Any head segment of the larva.") AnnotationAssertion( "UBERON:6001732") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001732") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval head segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (larval procephalic segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any procephalic segment (FBbt:00000007) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any procephalic segment of the larva.") AnnotationAssertion( "UBERON:6001733") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001733") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval procephalic segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (larval labral segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any labral segment (FBbt:00000008) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any labral segment of the larva.") AnnotationAssertion( "UBERON:6001734") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001734") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval labral segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (larval antennal segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any antennal segment (FBbt:00000009) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any antennal segment of the larva.") AnnotationAssertion( "UBERON:6001735") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001735") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval antennal segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) @@ -7354,10 +7288,11 @@ AnnotationAssertion( "FBbt:00001760") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval imaginal tissue") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (imaginal disc) @@ -7401,20 +7336,36 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic/larval nervous system) +# Class: (larval digestive system) + +AnnotationAssertion(Annotation( "FlyBase:FBrf0007733") Annotation( "FlyBase:FBrf0064792") "Any digestive system of the larva.") +AnnotationAssertion( "FBbt:00005764") +AnnotationAssertion( "UBERON:6001842") +AnnotationAssertion( "embryonic/larval digestive system") +AnnotationAssertion( "fly_anatomy.ontology") +AnnotationAssertion( "FBbt:00001842") +AnnotationAssertion( ) +AnnotationAssertion(rdfs:label "larval digestive system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + +# Class: (larval nervous system) AnnotationAssertion(Annotation( "FlyBase:FBrf0045359") Annotation( "FlyBase:FBrf0075072") Annotation( "FlyBase:FBrf0105282") "Nervous system of the embryo/larva.") AnnotationAssertion( "FBbt:00005719") AnnotationAssertion( "UBERON:6001911") AnnotationAssertion( "VFB:FBbt_00001911") -AnnotationAssertion( "larval nervous system") +AnnotationAssertion( "embryonic/larval nervous system") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001911") AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic/larval nervous system") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +AnnotationAssertion(rdfs:label "larval nervous system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (larval neuromere) @@ -7424,35 +7375,38 @@ AnnotationAssertion( "FBbt:00001912") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval neuromere") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic/larval central nervous system) +# Class: (larval central nervous system) AnnotationAssertion(Annotation( "FBC:SPR") "Central nervous system of the embryo/larva.") AnnotationAssertion( "UBERON:6001919") AnnotationAssertion( "VFB:FBbt_00001919") AnnotationAssertion( "embryonic/larval CNS") -AnnotationAssertion( "larval central nervous system") +AnnotationAssertion( "embryonic/larval central nervous system") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00001919") AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic/larval central nervous system") +AnnotationAssertion(rdfs:label "larval central nervous system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic/larval brain) +# Class: (larval brain) AnnotationAssertion(Annotation( "FlyBase:FBrf0161020") Annotation( "FlyBase:FBrf0225812") Annotation( "FlyBase:FBrf0244240") "Supraesophageal ganglion of the late embryo or larva, consisting of the protocerebrum, deutocerebrum and tritocerebrum (Urbach and Technau, 2003; Li et al., 2014; Crews, 2019).") AnnotationAssertion( "UBERON:6001920") AnnotationAssertion( "VFB:FBbt_00001920") AnnotationAssertion( "embryonic/larval SPG") +AnnotationAssertion( "embryonic/larval brain") AnnotationAssertion(Annotation( "FlyBase:FBrf0225812") "embryonic/larval supraesophageal complex") AnnotationAssertion( "embryonic/larval supraesophageal ganglion") AnnotationAssertion( "larval SPG") -AnnotationAssertion( "larval brain") AnnotationAssertion( "larval cerebral ganglion") AnnotationAssertion( "larval supraesophageal ganglion") AnnotationAssertion( "fly_anatomy.ontology") @@ -7460,12 +7414,13 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic/larval brain") +AnnotationAssertion(rdfs:label "larval brain") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (larval protocerebrum) @@ -7481,7 +7436,7 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "larval protocerebrum") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -7523,23 +7478,24 @@ SubClassOf( ObjectSomeValuesFrom(< SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic/larval sense organ) +# Class: (larval sense organ) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any sense organ (FBbt:00005155) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any sense organ of the larva.") AnnotationAssertion( "UBERON:6002639") AnnotationAssertion( "VFB:FBbt_00002639") -AnnotationAssertion( "larval sense organ") +AnnotationAssertion( "embryonic/larval sense organ") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00002639") AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic/larval sense organ") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +AnnotationAssertion(rdfs:label "larval sense organ") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (larval ocular segment sense organ) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any embryonic/larval sense organ (FBbt:00002639) that is part of some ocular segment (FBbt:00000005).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any larval sense organ (FBbt:00002639) that is part of some ocular segment (FBbt:00000005).") AnnotationAssertion( "UBERON:6002642") AnnotationAssertion( "VFB:FBbt_00002642") AnnotationAssertion( "embryonic/larval ocular segment sensillum") @@ -7553,7 +7509,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (embryonic/larval labral segment sense organ) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any embryonic/larval sense organ (FBbt:00002639) that is part of some labral segment (FBbt:00000008).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any larval sense organ (FBbt:00002639) that is part of some labral segment (FBbt:00000008).") AnnotationAssertion( "FBbt:00002650") AnnotationAssertion( "VFB:FBbt_00002649") AnnotationAssertion( "larval labral segment sense organ") @@ -7567,7 +7523,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (larval antennal segment sense organ) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any embryonic/larval sense organ (FBbt:00002639) that is part of some antennal segment (FBbt:00000009).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any larval sense organ (FBbt:00002639) that is part of some antennal segment (FBbt:00000009).") AnnotationAssertion( "VFB:FBbt_00002654") AnnotationAssertion( "embryonic/larval antennal segment sensillum") AnnotationAssertion( "fly_anatomy.ontology") @@ -7623,15 +7579,16 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (adult tagma) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any tagma (FBbt:00000002) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any tagma of the adult.") AnnotationAssertion( "UBERON:6003005") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00003005") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult tagma") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult segment) @@ -7641,9 +7598,10 @@ AnnotationAssertion( "FBbt:00003006") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult head) @@ -7654,19 +7612,19 @@ AnnotationAssertion( "FBbt:00003007") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult head") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (adult ocular segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any ocular segment (FBbt:00000005) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any ocular segment of the adult.") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "adult acron") AnnotationAssertion( "FBbt:00003008") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult ocular segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) @@ -7678,38 +7636,38 @@ AnnotationAssertion( "FBbt:00003009") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult head segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult procephalic segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any procephalic segment (FBbt:00000007) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any procephalic segment of the adult.") AnnotationAssertion( "UBERON:6003010") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00003010") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult procephalic segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (adult labral segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any labral segment (FBbt:00000008) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any labral segment of the adult.") AnnotationAssertion( "UBERON:6003011") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00003011") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult labral segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) # Class: (adult antennal segment) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any antennal segment (FBbt:00000009) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any antennal segment of the adult.") AnnotationAssertion( "FBbt:00004512") AnnotationAssertion( "UBERON:6003012") AnnotationAssertion( "adult antennal structure") @@ -7717,20 +7675,22 @@ AnnotationAssertion( "FBbt:00003012") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult antennal segment") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) -# Class: (pupal/adult digestive system) +# Class: (adult digestive system) -AnnotationAssertion(Annotation( "FlyBase:FBrf0007735") "Digestive system of the pupa or adult.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0007733") Annotation( "FlyBase:FBrf0007735") "Digestive system of the adult, comprising the alimentary canal, mouthparts, labellar glands, salivary glands and Malpighian tubules (Miller, 1950). The adult alimentary canal and salivary glands arise anew from precursors during metamorphosis (Bodenstein, 1950). The adult Malpighian tubules are remodelled from those of the larva (Bodenstein, 1950).") AnnotationAssertion( "fly_anatomy.ontology") +AnnotationAssertion( "pupal/adult digestive system") AnnotationAssertion( "FBbt:00003123") AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "pupal/adult digestive system") +AnnotationAssertion(rdfs:label "adult digestive system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (alimentary canal) @@ -7743,16 +7703,6 @@ AnnotationAssertion(rdfs:label "a SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (adult muscle system) - -AnnotationAssertion(Annotation( "FlyBase:FBrf0007735") "Muscle system of the adult.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00003218") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "adult muscle system") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (adult apodeme) AnnotationAssertion(Annotation( "FBC:SPR") "Apodeme that is part of an adult.") @@ -7761,22 +7711,24 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult apodeme") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult nervous system) -AnnotationAssertion(Annotation( "FlyBase:FBrf0002482") Annotation( "FlyBase:FBrf0007196") Annotation( "FlyBase:FBrf0007735") Annotation( "FlyBase:FBrf0034076") "Any nervous system (FBbt:00005093) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FlyBase:FBrf0002482") Annotation( "FlyBase:FBrf0007196") Annotation( "FlyBase:FBrf0007735") Annotation( "FlyBase:FBrf0034076") "Any nervous system of the adult.") AnnotationAssertion( "UBERON:6003559") AnnotationAssertion( "VFB:FBbt_00003559") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00003559") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult nervous system") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult central nervous system) @@ -7788,8 +7740,10 @@ AnnotationAssertion( "FBbt:00003623") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult central nervous system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult brain) @@ -7801,9 +7755,10 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult brain") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (supraesophageal ganglion) @@ -7855,15 +7810,16 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (adult sense organ) -AnnotationAssertion(Annotation( "FlyBase:FBrf0007734") Annotation( "FlyBase:FBrf0031004") "Any sense organ (FBbt:00005155) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FlyBase:FBrf0007734") Annotation( "FlyBase:FBrf0031004") "Any sense organ of the adult.") AnnotationAssertion( "VFB:FBbt_00004113") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00004113") AnnotationAssertion( ) AnnotationAssertion(rdfs:label "adult sense organ") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (head sensillum) @@ -7895,16 +7851,17 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (developing embryonic structure) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any developing material anatomical entity (FBbt:00007006) that is part of some embryo (FBbt:00000052).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any developing material anatomical entity of the embryo.") AnnotationAssertion( "UBERON:0002050") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00004208") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "developing embryonic structure") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (late extended germ band embryo) @@ -8028,16 +7985,6 @@ AnnotationAssertion( "digestive system") SubClassOf( ) -# Class: (muscle system) - -AnnotationAssertion(Annotation( "FlyBase:FBrf0007735") Annotation( "FlyBase:FBrf0031016") Annotation( "FlyBase:FBrf0041814") Annotation( "FlyBase:FBrf0044229") Annotation( "FlyBase:FBrf0064793") "Comprising somatic and visceral muscles, the muscle system consist of a multitude of contractile fibers arranged in groups and layers.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00005069") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "muscle system") -SubClassOf( ) - # Class: (apodeme) AnnotationAssertion(Annotation( "FlyBase:FBrf0111704") Annotation( "FlyBase:FBrf0166419") Annotation( "FlyBase:FBrf0230923") "A cuticular ingrowth of the exoskeleton, sometimes only a peg, frequently ridge-like, and often serving as a muscle attachment site. Does not generally correspond to superficial invaginations.") @@ -8163,10 +8110,10 @@ SubClassOf( (pre-blastoderm embryo) +AnnotationAssertion(Annotation( "FlyBase:FBrf0039741") Annotation( "FlyBase:FBrf0089570") Annotation( "FlyBase:FBrf0220623") "Embryo prior to the formation of the syncitial blastoderm, shortly after nuclear cycle 9 (Foe and Alberts, 1983; Jaeger et al., 2012). This period lasts from fertilization to the end of embryonic stage 3 (Campos-Ortega and Hartenstein, 1997).") +AnnotationAssertion( "FBdv:00005290") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00005290") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "pre-blastoderm embryo") SubClassOf( ) @@ -8209,11 +8156,10 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (blastoderm embryo) -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "A collective term for stages 3-5.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0039741") Annotation( "FlyBase:FBrf0089570") Annotation( "FlyBase:FBrf0220623") "Embryo during the blastoderm stage, where most nuclei are found at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). The blastoderm stage begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997).") +AnnotationAssertion( "FBdv:00005304") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00005304") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "blastoderm embryo") SubClassOf( ) @@ -8256,12 +8202,12 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (gastrula embryo) -AnnotationAssertion(Annotation( "FBC:GG") Annotation( "https://orcid.org/0000-0002-7073-9172") "A collective term for stages 6-8, during which complex morphogenetic movements result in the formation of the three germ layers; ectoderm, mesoderm and endoderm.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0064803") "Embryo that is in the process of gastrulation (encompassing embryonic stages 6-8), during which complex morphogenetic movements result in the formation of the three germ layers; ectoderm, mesoderm and endoderm (Hartenstein, 1993).") +AnnotationAssertion( "FBdv:00005317") AnnotationAssertion( "UBERON:0004734") +AnnotationAssertion( "gastrulation stage embryo") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00005317") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "gastrula embryo") SubClassOf( ) SubClassOf( ) @@ -8269,11 +8215,10 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (extended germ band embryo) -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "A collective term for stages 9-12.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0229323") Annotation( "https://orcid.org/0000-0002-7073-9172") "Embryo during stages 9-12.") +AnnotationAssertion( "FBdv:00005321") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00005321") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "extended germ band embryo") SubClassOf( ) SubClassOf( ) @@ -8281,13 +8226,12 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (dorsal closure embryo) -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "A collective term for stages 13-15.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0064803") Annotation( "FlyBase:FBrf0089570") "Embryo during the dorsal closure stage, which corresponds to stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997).") +AnnotationAssertion( "FBdv:00005331") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "contracted germ band embryo") AnnotationAssertion( "head involution embryo") AnnotationAssertion( "FBbt:00005331") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "dorsal closure embryo") SubClassOf( ) SubClassOf( ) @@ -8295,12 +8239,11 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (late embryo) -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "A collective term for stages 16 and 17.") +AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "Embryo during stages 16 and 17.") +AnnotationAssertion( "FBdv:00005333") AnnotationAssertion( "UBERON:0000323") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00005333") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "DEPRECATION WARNING.") AnnotationAssertion(rdfs:label "late embryo") SubClassOf( ) SubClassOf( ) @@ -8332,17 +8275,35 @@ AnnotationAssertion( "presumptive embryonic/larval integumentary system") SubClassOf( ) -# Class: (embryonic/larval integumentary system) +# Class: (larval integumentary system) AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Integumentary system of the late embryo or larva.") AnnotationAssertion( "UBERON:6005393") -AnnotationAssertion( "larval integumentary system") +AnnotationAssertion( "embryonic/larval integumentary system") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00005393") AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic/larval integumentary system") +AnnotationAssertion(rdfs:label "larval integumentary system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + +# Class: (adult integumentary system) + +AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Integumentary system of the adult.") +AnnotationAssertion( "FBbt:00004474") +AnnotationAssertion( "UBERON:6005396") +AnnotationAssertion( "adult integument") +AnnotationAssertion( "fly_anatomy.ontology") +AnnotationAssertion( "adult external") +AnnotationAssertion( "FBbt:00005396") +AnnotationAssertion( ) +AnnotationAssertion(rdfs:label "adult integumentary system") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (embryonic epidermis) @@ -8365,21 +8326,6 @@ AnnotationAssertion( "anlage in statu nascendi") SubClassOf( ) -# Class: (central brain anlage in statu nascendi) - -AnnotationAssertion(Annotation( "FBC:VH") "Anlage in statu nascendi of the embryonic central brain in a stage 5 embryo. It will give rise to the central brain anlage.") -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "Asn CenBr") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "A0ProcEC") -AnnotationAssertion( "procephalic ectoderm anlage in statu nascendi") -AnnotationAssertion( "FBbt:00005415") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "central brain anlage in statu nascendi") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (visual anlage in statu nascendi) AnnotationAssertion(Annotation( "FBC:VH") "Anlage in statu nascendi of the visual system in a stage 5 embryo that will give rise to the visual system anlage.") @@ -8488,50 +8434,6 @@ SubClassOf( ObjectIntersectionOf(O SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (central brain primordium) - -AnnotationAssertion(Annotation( "FBC:VH") Annotation( "https://orcid.org/0000-0002-7073-9172") "Primordium of the embryonic central brain in the extended germ band and dorsal closure embryo.") -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "P1 Cen Br") -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "P3 CenBr") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "ProcEcP2") -AnnotationAssertion( "procephalic ectoderm primordium") -AnnotationAssertion( "FBbt:00005542") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "central brain primordium") -SubClassOf( ) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (head epidermis primordium) - -AnnotationAssertion( "Primordium that develops into a region of head epidermis.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "HeadEpiP3") -AnnotationAssertion( "FBbt:00005547") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "head epidermis primordium") -SubClassOf( ) - -# Class: (protocerebrum primordium) - -AnnotationAssertion(Annotation( "FBC:Autogenerated") "A(n) primordium that develops into some embryonic protocerebrum.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "ProtP3") -AnnotationAssertion( "FBbt:00005549") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "protocerebrum primordium") -SubClassOf( ) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (ventral ectoderm) AnnotationAssertion(Annotation( "FlyBase:FBrf0244630") Annotation( "FlyBase:FBrf0246683") "Ventral region of the trunk ectoderm, which gives rise to the ventral epidermis and the central nervous system (Stathopoulos and Newcomb, 2020).") @@ -8550,43 +8452,6 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (embryonic central brain) - -AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Brain of the embryo that excludes the optic lobes. It includes the protocerebrum, deutocerebrum and tritocerebrum.") -AnnotationAssertion( "VFB:FBbt_00005662") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00005662") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic central brain") -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (embryonic head epidermis) - -AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Epidermis of the embryonic head.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00005741") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "embryonic head epidermis") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (embryonic dorsal pouch) - -AnnotationAssertion(Annotation( "FlyBase:FBrf0041814") "Epidermal pouch in the embryonic head that incorporates the acron and dorsal regions of the head segments. It forms following the movement of the dorsal fold over the clypeolabrum and procephalic lobe.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00005743") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:comment "Note - possible redundancy between primordium term and embryonic term. ds060616.") -AnnotationAssertion(rdfs:label "embryonic dorsal pouch") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (embryonic ventral epidermis) AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Epidermis of the ventral region of the embryo.") @@ -8680,15 +8545,6 @@ EquivalentClasses( ObjectIntersect SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (dorsal pouch) - -AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Epidermal pouch in the head of the embryo or larva.") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00005807") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "dorsal pouch") -SubClassOf( ) - # Class: (Bolwig organ primordium) AnnotationAssertion(Annotation( "FBC:VH") Annotation( "FlyBase:FBrf0089570") Annotation( "FlyBase:FBrf0151275") Annotation( "https://orcid.org/0000-0002-7073-9172") "Primordium of the late extended and dorsal closure embryo that gives rise to the larval Bolwig organ. It corresponds to the most posterior region that develops from the visual primordium.") @@ -8766,7 +8622,6 @@ DisjointClasses( (epithelium) AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-9114-8737") "Portion of tissue, that consists of one or more layers of cells with distinct apical-basal polarity, connected to each other by cell junctions.") -AnnotationAssertion( "CARO:0000066") AnnotationAssertion( "UBERON:0000483") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007005") @@ -8776,6 +8631,7 @@ SubClassOf( (developing material anatomical entity) +AnnotationAssertion( "CARO:0000066") AnnotationAssertion( "UBERON:0005423") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007006") @@ -8872,7 +8728,7 @@ AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007116") AnnotationAssertion(rdfs:label "presumptive embryonic/larval system") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) @@ -8886,7 +8742,7 @@ AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007145") AnnotationAssertion(rdfs:label "adult protocerebrum") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -8990,27 +8846,27 @@ SubClassOf( (adult sensillum) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any sensillum (FBbt:00007152) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any sensillum of the adult.") AnnotationAssertion( ) AnnotationAssertion( "2008-10-22T09:42:58Z"^^xsd:dateTime) AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007239") AnnotationAssertion(rdfs:label "adult sensillum") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) -# Class: (embryonic/larval sensillum) +# Class: (larval sensillum) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any sensillum (FBbt:00007152) that is part of some larva (FBbt:00001727).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any sensillum of the larva.") AnnotationAssertion( ) AnnotationAssertion( "2008-10-22T09:42:58Z"^^xsd:dateTime) AnnotationAssertion( "UBERON:6007240") -AnnotationAssertion( "larval sensillum") +AnnotationAssertion( "embryonic/larval sensillum") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007240") -AnnotationAssertion(rdfs:label "embryonic/larval sensillum") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +AnnotationAssertion(rdfs:label "larval sensillum") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) @@ -9148,6 +9004,19 @@ AnnotationAssertion( "internal sense organ") SubClassOf( ) +# Class: (embryonic/larval gut) + +AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "Structure consisting of the embryonic/larval foregut, midgut and hindgut.") +AnnotationAssertion( ) +AnnotationAssertion( "2010-10-04T09:58:25Z"^^xsd:dateTime) +AnnotationAssertion( "fly_anatomy.ontology") +AnnotationAssertion( "FBbt:00007512") +AnnotationAssertion(rdfs:label "embryonic/larval gut") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (adult gut) AnnotationAssertion(Annotation( "FlyBase:FBrf0223413") Annotation( "https://orcid.org/0000-0002-7073-9172") "Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The adult gut is divided into the adult foregut, midgut and hindgut regions, based on developmental origin.") @@ -9156,9 +9025,10 @@ AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00007513") AnnotationAssertion(rdfs:label "adult gut") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (trichome field) @@ -9258,43 +9128,6 @@ AnnotationAssertion( "early extended germ band embryo") SubClassOf( ) -# Class: (lateral head epidermis primordium) - -AnnotationAssertion(Annotation( "FBC:Autogenerated") "A(n) primordium that develops into some lateral head epidermis. It develops from some central brain anlage.") -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "P1 HeadEpL") -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "P2 HeadEpL") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00014203") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "lateral head epidermis primordium") -SubClassOf( ) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (central brain anlage) - -AnnotationAssertion(Annotation( "FBC:VH") Annotation( "https://orcid.org/0000-0001-5948-3092") "Anlage of the embryonic central brain in the gastrula embryo that will give rise to the central brain primordium.") -AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "A CenBr") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "AProcEC") -AnnotationAssertion( "procephalic ectoderm anlage") -AnnotationAssertion( "FBbt:00015256") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "central brain anlage") -SubClassOf( ) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (ventral trunk epidermis primordium) AnnotationAssertion(Annotation( "FBC:VH") "Primordium of the ventral trunk epidermis of the late extended germ band and dorsal closure embryo that will give rise to the embryonic ventral trunk epidermis.") @@ -9522,9 +9355,10 @@ AnnotationAssertion( "FBbt:00051067") AnnotationAssertion(rdfs:comment "This is analogous to the adult term based on Ito et al. (2014), reflecting location relative to the esophagus, rather than segmental identity.") AnnotationAssertion(rdfs:label "larval subesophageal zone") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (subesophageal zone) @@ -9566,35 +9400,24 @@ AnnotationAssertion( "FBbt:00051070") AnnotationAssertion(rdfs:comment "This is analogous to the adult term based on Ito et al. (2014), reflecting location relative to the esophagus, rather than segmental identity.") AnnotationAssertion(rdfs:label "larval supraesophageal zone") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (embryonic neuromere) - -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any neuromere (FBbt:00005140) that is part of some embryo (FBbt:00000052).") -AnnotationAssertion( ) -AnnotationAssertion( "2024-01-12T15:01:48Z"^^xsd:dateTime) -AnnotationAssertion( "VFB:FBbt_00052717") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00052717") -AnnotationAssertion(rdfs:label "embryonic neuromere") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult neuromere) -AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any neuromere (FBbt:00005140) that is part of some adult (FBbt:00003004).") +AnnotationAssertion(Annotation( "FBC:Autogenerated") "Any neuromere of the adult.") AnnotationAssertion( ) AnnotationAssertion( "2024-01-12T15:15:54Z"^^xsd:dateTime) AnnotationAssertion( "VFB:FBbt_00052718") AnnotationAssertion( "fly_anatomy.ontology") AnnotationAssertion( "FBbt:00052718") AnnotationAssertion(rdfs:label "adult neuromere") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (anterior-posterior subdivision of organism) @@ -9640,18 +9463,16 @@ AnnotationAssertion(rdfs:label "a SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (lateral head epidermis) +# Class: (embryonic/larval alimentary canal) -AnnotationAssertion(Annotation( "FBC:VH") Annotation( "https://orcid.org/0000-0002-7073-9172") ".") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00105220") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "lateral head epidermis") -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +AnnotationAssertion(Annotation( "https://orcid.org/0000-0002-7073-9172") "The entire embryonic/larval anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.") +AnnotationAssertion( ) +AnnotationAssertion( "2010-11-04T02:13:05Z"^^xsd:dateTime) +AnnotationAssertion( "fly_anatomy.ontology") +AnnotationAssertion( "FBbt:00100323") +AnnotationAssertion(rdfs:label "embryonic/larval alimentary canal") +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (late embryonic primordium of adult eye) @@ -9665,20 +9486,6 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (pupal nervous system) - -AnnotationAssertion(Annotation( "https://orcid.org/0000-0001-5948-3092") "Nervous system of the pupa.") -AnnotationAssertion( ) -AnnotationAssertion( "2013-01-04T10:01:28Z"^^xsd:dateTime) -AnnotationAssertion( "VFB:FBbt_00110192") -AnnotationAssertion( "fly_anatomy.ontology") -AnnotationAssertion( "FBbt:00110192") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "pupal nervous system") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (adult cerebral ganglion) AnnotationAssertion(Annotation( "FlyBase:FBrf0224194") "The supraesophageal neuropils of the adult brain located above, around and partially below the esophagus, including the optic lobes. It excludes the gnathal ganglion. Developmentally, it comprises three fused neuromeres: protocerebrum, deutocerebrum, and tritocerebrum.") @@ -9696,9 +9503,11 @@ AnnotationAssertion( ) AnnotationAssertion(rdfs:comment "This term is related to what used to be called supraesophageal ganglion, and is now referred to as supraesophageal zone. The adult cerebral ganglion, together with the gnathal ganglia (GNG), denote regions that follow the segmental neuromeres of the brain (the 3 rostral and 3 caudal, respectively). These are distinguishable from supra- and subesophageal zones, as these refer to the neuropil masses above and below the esophagus and do not respect neuromere boundaries (Ito et al., 2014).") AnnotationAssertion(rdfs:label "adult cerebral ganglion") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult supraesophageal zone) @@ -9714,9 +9523,10 @@ AnnotationAssertion( ) AnnotationAssertion(rdfs:comment "This term refers to what used to be called supraesophageal ganglion. The new name, together with subesophageal zone, refer to the neuropil masses above and below the esophagus and do not respect neuromere boundaries. The terms cerebral ganglia (CRG) and gnathal ganglia (GNG), denote regions that follow the segmental neuromeres of the brain (the 3 rostral and 3 caudal, respectively) (Ito et al., 2014).") AnnotationAssertion(rdfs:label "adult supraesophageal zone") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adult subesophageal zone) @@ -9734,9 +9544,10 @@ AnnotationAssertion( ) AnnotationAssertion(rdfs:comment "This term refers to what used to be called subesophageal ganglion. The new name, together with supraesophageal zone, refer to the brain tissue below and above the esophagus and do not respect neuromere boundaries. The terms cerebral ganglia (CRG) and gnathal ganglia (GNG), denote the segmental neuromeres of the brain (the 3 rostral and 3 caudal, respectively) (Ito et al., 2014). Sterne et al. (2021) - FBrf0251280 define the SEZ as comprising GNG + TR.") AnnotationAssertion(rdfs:label "adult subesophageal zone") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (anterior ectoderm anlage) @@ -9822,7 +9633,7 @@ SubClassOf( (cleavage stage) -AnnotationAssertion(Annotation( "FBC:DOS") "A collective term for stages 1-4.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0064803") Annotation( "FlyBase:FBrf0089570") "Stage during which the nucleus of the fertilized egg performs 13 rapid divisions, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface and then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 1-4 (Hartenstein, 1993).") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00000054") AnnotationAssertion(rdfs:comment "Temporal ordering number - 25.") @@ -10177,7 +9988,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (embryonic stage) -AnnotationAssertion(Annotation( "FBC:DOS") "The stage of the Drosophila life-cycle from fertilization to hatching.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") "Life stage that begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997).") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005289") AnnotationAssertion(rdfs:comment "Temporal ordering number - 20.") @@ -10189,7 +10000,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (pre-blastoderm stage) -AnnotationAssertion(Annotation( "FBC:DOS") "Embryonic stage 1-3.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0039741") Annotation( "FlyBase:FBrf0089570") Annotation( "FlyBase:FBrf0220623") "Stage prior to the formation of the syncitial blastoderm, including the first 9 cell divisions and the migration of nuclei to the periphery (cortex) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). This lasts from fertilization to embryonic stage 3 (Campos-Ortega and Hartenstein, 1997).") AnnotationAssertion( "pre-blastoderm") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005290") @@ -10336,7 +10147,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (blastoderm stage) -AnnotationAssertion(Annotation( "FBC:DOS") "Embryonic stages 4 and 5.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0039741") Annotation( "FlyBase:FBrf0089570") Annotation( "FlyBase:FBrf0220623") "Stage during which most of the nuclei are arranged as a monolayer at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). It begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997).") AnnotationAssertion( "blastoderm") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005304") @@ -10350,8 +10161,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (embryonic stage 4) AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") "Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying).") -AnnotationAssertion( "syncytial blastoderm") -AnnotationAssertion( "syncytial blastoderm stage") +AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") "syncytial blastoderm stage") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005306") AnnotationAssertion(rdfs:comment "Temporal ordering number - 170.") @@ -10365,8 +10175,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (embryonic stage 5) AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") "Cellularization. Stage 5 begins when cellularization starts. Near the end of this stage the pole cells begin to migrate dorsally and ventral midline cells acquire an irregular, wavy appearance. Stage 5 ends when ventral furrow formation becomes apparent. Duration at 25 degrees: approximately 40 minutes (130-170 minutes after egg laying).") -AnnotationAssertion( "cellular blastoderm") -AnnotationAssertion( "cellular blastoderm stage") +AnnotationAssertion(Annotation( "FlyBase:FBrf0089570") "cellular blastoderm stage") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005311") AnnotationAssertion(rdfs:comment "Temporal ordering number - 210.") @@ -10378,8 +10187,9 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (gastrula stage) -AnnotationAssertion(Annotation( "FBC:DOS") "Stages during which gastrulation occurs. 6-8.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0064803") "Stage during which gastrulation occurs. During this stage, cells from the polar caps and the mid-ventral part of the blastoderm invaginate and ultimately generate the germ layers (Hartenstein, 1993). This encompasses embryonic stages 6-8 (Hartenstein, 1993).") AnnotationAssertion( "gastrula") +AnnotationAssertion( "gastrulation stage") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005317") AnnotationAssertion(rdfs:comment "Temporal ordering number - 220.") @@ -10414,7 +10224,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (extended germ band stage) -AnnotationAssertion(Annotation( "FBC:DOS") "Stages during which the germ band is extended - 9-12.") +AnnotationAssertion(Annotation( "FBC:DOS") Annotation( "FlyBase:FBrf0229323") "Stages during which the germ band is extended - 9-12.") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005321") AnnotationAssertion(rdfs:comment "Temporal ordering number - 260.") @@ -10511,7 +10321,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (dorsal closure stage) -AnnotationAssertion(Annotation( "FBC:DOS") "A collective term for stages 13-15.") +AnnotationAssertion(Annotation( "FlyBase:FBrf0064803") Annotation( "FlyBase:FBrf0089570") "Stage following germ band retraction, during which dorsal closure happens (Hartenstein, 1993). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997).") AnnotationAssertion( "FlyBase_development_CV") AnnotationAssertion( "FBdv:00005331") AnnotationAssertion(rdfs:comment "Temporal ordering number - 330.") @@ -11350,7 +11160,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (mitotic cell cycle) -AnnotationAssertion(Annotation( "GOC:mah") Annotation( "ISBN:0815316194") Annotation( "Reactome:69278") "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.") +AnnotationAssertion(Annotation( "GOC:mah") Annotation( "ISBN:0815316194") "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.") AnnotationAssertion( "GO:0007067") AnnotationAssertion( "Wikipedia:Mitosis") AnnotationAssertion( "biological_process") @@ -11528,7 +11338,6 @@ AnnotationAssertion( ) AnnotationAssertion(rdfs:label "nucleobase-containing compound metabolic process") SubClassOf( ) -SubClassOf( ) # Class: (DNA metabolic process) @@ -13145,7 +12954,7 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "macromolecule metabolic process") -SubClassOf( ) +SubClassOf( ) # Class: (regulation of system process) @@ -13159,7 +12968,8 @@ SubClassOf( ObjectSomeValuesFrom( (primary metabolic process) -AnnotationAssertion(Annotation( "GOC:go_curators") Annotation( "http://www.metacyc.org") "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.") +AnnotationAssertion(Annotation( "GOC:go_curators") "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.") +AnnotationAssertion( "Wikipedia:Primary_metabolite") AnnotationAssertion( "primary metabolism") AnnotationAssertion( "biological_process") AnnotationAssertion( "GO:0044238") @@ -13947,18 +13757,6 @@ AnnotationAssertion( "organism emergence from protective structure") SubClassOf( ) -# Class: (organic substance metabolic process) - -AnnotationAssertion(Annotation( "GOC:mah") "The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon.") -AnnotationAssertion( "organic molecular entity metabolic process") -AnnotationAssertion( "organic molecular entity metabolism") -AnnotationAssertion( "organic substance metabolism") -AnnotationAssertion( "biological_process") -AnnotationAssertion( "GO:0071704") -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "organic substance metabolic process") -SubClassOf( ) - # Class: (cellular component organization or biogenesis) AnnotationAssertion(Annotation( "GOC:mah") "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.") @@ -14093,15 +13891,6 @@ EquivalentClasses( ObjectIntersection SubClassOf( ) SubClassOf( ) -# Class: (organic cyclic compound metabolic process) - -AnnotationAssertion(Annotation( "GOC:TermGenie") "The chemical reactions and pathways involving organic cyclic compound.") -AnnotationAssertion(Annotation( "GOC:TermGenie") "organic cyclic compound metabolism") -AnnotationAssertion( "biological_process") -AnnotationAssertion( "GO:1901360") -AnnotationAssertion(rdfs:label "organic cyclic compound metabolic process") -SubClassOf( ) - # Class: (regulation of male mating behavior) AnnotationAssertion(Annotation( "GOC:TermGenie") Annotation( "PMID:24089208") "Any process that modulates the frequency, rate or extent of male mating behavior.") diff --git a/src/ontology/reports/basic-report.tsv b/src/ontology/reports/basic-report.tsv index b514dff..d022a34 100644 --- a/src/ontology/reports/basic-report.tsv +++ b/src/ontology/reports/basic-report.tsv @@ -14,7 +14,7 @@ "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of proboscis extension reflex (GO:0007637). 'proboscis extension reflex' is defined as: 'The extension, through direct muscle actions, of the proboscis (the trunk-like extension of the mouthparts on the adult external head) in response to a nutritional stimulus.'." "A group of trichomes covering a region of integument." "\"The action, reaction, or performance of an organism in response to external or internal stimuli.\" [GO:GO\\:0007610]" - "Digestive system of the pupa or adult." + "Embryo during the blastoderm stage, where most nuclei are found at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). The blastoderm stage begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997)." "FBdv:00005304" "A post-embryonic, macroscopic, anatomical phenotype." "The behavior of an organism relating to the progression of that organism along the ground by the process of lifting and setting down each leg." "The epidermis of the embryonic ventral trunk." @@ -42,7 +42,6 @@ "A quality of physical entities inhering in a bearer by virtue of the bearer's lacking a physical part as specified by the additional entity." "OBO_REL:lacks_part" "A mass of snow." "http://sweetontology.net/phenCryo/Accumulation" "A physical quality inhering in an organ or tissue by virtue of the bearer's exhibiting a decreased number of cells, typically associated with a decrease in size." - "Any procephalic segment (FBbt:00000007) that is part of some embryo (FBbt:00000052)." "UBERON:6000158" "Oogenesis stage that begins when nurse cell chromosomes are no longer bulbous - the association between homologs weakens so that these chromosomes no longer have a polytene structure. During this stage, posterior nurse cell nuclei have a higher ploidy (64C) than anterior ones." "A biome is an ecosystem which is undergoing climactic ecological succession."@en "LTER:809 EcoLexicon:biome" "Phenotype that is any abnormality in cell growth (GO:0016049). 'cell growth' is defined as: 'The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present.'" @@ -68,7 +67,9 @@ "Material anatomical entity that is a member of an individual species or is a viral or viroid particle." "The temperature of some soil." "A phenotype of a population that is the death of the majority of animals in that population during the larval stage." + "Any sense organ of the larva." "VFB:FBbt_00002639 UBERON:6002639" "Domain that does not yet coincide 1:1 with a later organ. Anlagen in statu nascendi are typically defined for the early blastoderm by the expression domains of genes which, in the late blastoderm or later, are expressed in specific anlagen, but initially come on in larger domains." + "Any procephalic segment of the adult." "UBERON:6003010" "A phenotype of a population that is the death of all animals in that population as immature adults (after eclosion but before the end of adult stage A3 (FBdv:00006012))." "A rate which is relatively high." @@ -80,6 +81,7 @@ "Locomotory behavior in a fully developed and mature organism." "Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The adult gut is divided into the adult foregut, midgut and hindgut regions, based on developmental origin." + "Any antennal segment of the embryo." "UBERON:6000160" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism." "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-))." @@ -93,12 +95,11 @@ "A phenotype that is the ability of females to produce fertilized eggs as a result of mating." "A quality denoting the lack of an entity." "A molecular entity that can transfer (\"donate\") an electron, a pair of electrons, an atom or a group to another molecular entity." "KEGG:C01351" - "." "UBERON:0000922" "A size quality which is relatively low." - "Any sense organ (FBbt:00005155) that is part of some adult (FBbt:00003004)." "VFB:FBbt_00004113" "Embryonic/larval segmentation phenotype that is the complete or partial loss of terminal regions of the embryo/larva: the acron, telson and immediately adjacent segments." "A chemical substance is a portion of matter of constant composition, composed of molecular entities of the same type or of different types." "A quality inhering in a bearer by virtue of the bearer's processing the form of a thin plate sheet or layer." + "Embryo during stages 16 and 17." "FBdv:00005333 UBERON:0000323" "Oogenesis stage that begins when the centripetal follicle cells begin to migrate. As a result, the vitelline membrane extends into the opercular region. This stage ends when nurse cell dumping begins." "Phenotype that is a shorter adult life-span than wild-type." "The first two hours of embryonic stage 17 at 25'C. (Approximately 16-18 hours at 25'C after egg laying)." @@ -108,6 +109,7 @@ "Phenotype that is an increased tendency for radiation exposure to cause toxic effects." "A quality inhering in a bearer by virtue of the bearer's deviation from normal or average." "The amount of a carbon atom when measured in water." + "Any ocular segment of the larva." "UBERON:6001731" "Phenotype that is any abnormality in meiotic cell cycle (GO:0051321). 'meiotic cell cycle' is defined as: 'Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell via two nuclear divisions.'" "The fluctuation in mating behavior that occurs over an approximately 24 hour cycle." "The third larval instar begins at the second larval molt and ends at puparium formation. Anterior spiracles are open to the outside; posterior spiracles have three openings each, and four groups of large branched hairs. The salivary glands extend to the second abdominal segment, with cells larger in the posterior than in the anterior of the gland. Mouth hooks typically have 9-12 teeth. About 24 hours before pupariation (at 25 degree C), larvae stop feeding and climb away from their food. Duration at 25 degrees C: approximately 48 hours (72-120 hours after egg laying; 48-96 hours after hatching)." "UBERON:8000002" @@ -115,7 +117,6 @@ "Anatomical structure which is a subdivision of a whole organism, consisting of components of multiple anatomical systems, largely surrounded by a contiguous region of integument."@en "A quality that inheres in an entire organism or part of an organism." "A quality inhering in a bearer by virtue of the bearer's disposition to resist to a stimulus." - "Protocerebrum of the embryo. It is the most anterior of the supraesophageal neuromeres, located anterior to the deutocerebral neuromere. It is derived from the labral and ocular segments." "VFB:FBbt_00001066" "A planetary surface is a surface layer where the solid or liquid material of a planet comes into contact with an atmosphere or outer space." "Any process that modulates the frequency, rate or extent of response to oxidative stress." "Nuclear divisions 1 and 2. Duration at 25 degrees C: approximately 25 minutes (0-25 minutes after egg laying)." @@ -132,18 +133,21 @@ "A fertility quality inhering in a bearer by virtue of the bearer's disposition to make its offspring sterile." "Tips of folded wings become grey. Duration at 25 degrees C: approximately 45 minutes (195.5-196.6 hours after egg laying; 75.9-76.6 hours after puparium formation)." + "Any antennal segment of the adult." "UBERON:6003012" "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of flight behavior (GO:0007629). 'flight behavior' is defined as: 'The response to external or internal stimuli that results in the locomotory process of flight. Flight is the self-propelled movement of an organism through the air.'." "The series of events in which an external stimulus is received by a cell and converted into a molecular signal." "A process, occurring at the cellular level, that is involved in the reproductive function of a multicellular organism." "A phenotype of a population that is the death of all animals in that population during the pharate adult stage." + "Embryo that is in the cleavage stage, which encompasses the first 13 rapid divisions after fertilization, corresponding to embryonic stages 1-4, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface, to form the syncitial blastoderm (Campos-Ortega and Hartenstein, 1997). They then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997)." "FBdv:00000054" "An electromagnetic radiation process during which electromagnetic waves or their quanta are emitted from a star." "NCIT:C44445" "A crystal which is primarily composed of water ice." "http://sweetontology.net/matrWater/Ice" "An organismal quality inhering in a bearer or a population by virtue of the bearer's disposition to survive and develop normally or the number of surviving individuals in a given population." "A part of an astronomical body which is composed of a continuous medium bearing liquid, gaseous, and solid material in variable quantities."@en "Phenotype that is a decrease in the efficacy of memory (GO:0007613) relative to controls. 'memory' is defined as: 'The activities involved in the mental information processing system that receives (registers), modifies, stores, and retrieves informational stimuli. The main stages involved in the formation and retrieval of memory are encoding (processing of received information by acquisition), storage (building a permanent record of received information as a result of consolidation) and retrieval (calling back the stored information and use it in a suitable way to execute a given task).'" "The 'yellow body' moves back between the Malpighian tubules. The transparent pupal cuticle separates from the underlying epidermis. Eye cup becomes yellow at its perimeter. Duration at 25 degrees C: approximately 12 hours. (152.4-164.3 hours after egg laying; 32.4-44.3 hours after puparium formation)." + "Any larval sense organ (FBbt:00002639) that is part of some antennal segment (FBbt:00000009)." "VFB:FBbt_00002654" - "Any antennal segment (FBbt:00000009) that is part of some embryo (FBbt:00000052)." "UBERON:6000160" + "Any larval sense organ (FBbt:00002639) that is part of some labral segment (FBbt:00000008)." "VFB:FBbt_00002649" "A collective term for stages 11 and 12." "Any process that establishes and transmits the specification of sexual status of an individual organism." "Wikipedia:Sex-determination_system" "Any nutrient required in small quantities by organisms throughout their life in order to orchestrate a range of physiological functions." "Wikipedia:Micronutrient" @@ -160,15 +164,11 @@ "WebElements:N" "The directed movement of a motile cell or organism in response to light." "Wikipedia:Phototaxis" - "Any embryonic/larval sense organ (FBbt:00002639) that is part of some antennal segment (FBbt:00000009)." "VFB:FBbt_00002654" "An anatomical system consisting of all of the anatomical entities that function in some part of the sensory perception of light." "Primordium of the embryo that will give rise to the adult eye. It corresponds to the most anterior region that develops from the visual primordium." "Genotype g1 is a non-suppressor of variegation of the phenotype due to genotype g2 if, and only if, g2 has a variegated phenotype and the degree of variegation caused by g1g2 is not less than that caused by g2 alone." - "Epidermis of the embryonic head." - "Primordium of the embryonic central brain in the extended germ band and dorsal closure embryo." "Head segment derived from the second embryonic segment (between the labral and antennal segments). In the larva, this segment includes Bolwig's organ." "UBERON:6000005" "Ecozones delineate large areas of a planetary surface within which organisms have been evolving in relative isolation over long periods of time, separated from one another by geographic features, such as oceans, broad deserts, or high mountain ranges, that constitute barriers to migration." - "A collective term for stages 1-4." "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex. Or, a substance produced by a cellular organism with granularity above the level of a protein complex." "Protocerebrum of the adult brain." "VFB:FBbt_00007145 UBERON:6007145" "Any process that modulates the frequency, rate or extent of replication and segregation of genetic material in the embryo." @@ -190,19 +190,20 @@ "An environmental material which is unable to resist shear forces and continuously deforms when subject to them."@en "An environmental material which is 1) composed primarily of soil or rock and included ice or organic material and 2) at or below the freezing point of water for two or more years."@en "http://sweetontology.net/realmSoil/Permafrost LTER:408 https://en.wikipedia.org/wiki/Permafrost" "A cycle of nuclear division during the embryogenesis of Drosophila melanogaster. The first 13 cycles are synchronous throughout the embryo and occur their timing relative to other developmental processes is invariant. Later nuclear division cycles are asynchronous across the embryo although may be more locally synchronized." - "." "The surface layer of a mass of sediment." "An mass of environmental materials which has appreciable quantities of several individual materials, such that the removal of one would convert the mass into a different entity."@en "Any process that modulates the frequency, rate or extent of meiotic nuclear division, the process in which the nucleus of a diploid cell divides twice forming four haploid cells, one or more of which usually function as gametes." + "Any segment of the embryo." "UBERON:6000154" + "Any procephalic segment of the larva." "UBERON:6001733" "Pharate adult stage P15 begins with the tanning of the tergites and ends with eclosion. Duration at 25 degrees C: approximately 8 hours, 30 minutes. (211.5-220 hours after egg laying; 91.5-100 hours after puparium formation)." "Stage 14 begins with the initiation of head involution. Closure of the midgut around the yolk and dorsal closure continue. Dorsal closure is 80% complete by the end of this stage. This stage ends with the appearance of the second midgut constriction. Duration at 25 degrees C: approximately 60 minutes (620-680 minutes after egg laying)." "A quality of a substance on which or through which electromagnetic radiation impinges or traverses with respect to radiation. This substance quality changes the quality of the incident radiation with respect to any of: intensity, direction, scatter and wavelength." "Anterior part of the organism, including mouthparts, some sensory structures and the brain." "UBERON:6000004" "A process during which a portion of some environmental material is converted into a different material or a collection of materials." - "Muscle system of the adult." "One of the three main divisions of the whole organism formed from groups of segments." "UBERON:6000002" "Phenotype that is any abnormality in response to stress (GO:0006950). 'response to stress' is defined as: 'Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).'" "Phenotype that is any abnormality in proboscis extension reflex (GO:0007637). 'proboscis extension reflex' is defined as: 'The extension, through direct muscle actions, of the proboscis (the trunk-like extension of the mouthparts on the adult external head) in response to a nutritional stimulus.'" + "An organism that is undergoing embryogenesis (Campos-Ortega and Hartenstein, 1997). Embryogenesis begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997)." "UBERON:0000922 FBdv:00005289" "Locomotory behavior in a larval (immature) organism." "Any substance introduced into a living organism with therapeutic or diagnostic purpose." "A molecule all atoms of which have the same atomic number." @@ -216,6 +217,7 @@ "Any physiological process involved in changing the position of a multicellular organism or an anatomical part of a multicellular organism." "A material entity that consists of two or more organisms, viruses, or viroids."@en "A surface layer which is composed primarily of some liquid." + "The entire embryonic/larval anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut." "A phenotype of a population that is the death of a significant proportion of animals in that population during the first instar larval stage." "A part of an astronomical body which is primarily composed of fluid."@en "The meconium appears dorsally at the posterior tip of the abdomen. Duration at 25 degrees C: approximately 9 hours, 30 minutes (201.9-211.5 hours after egg laying; 81.9-91.5 hours after puparium formation)." @@ -225,7 +227,6 @@ "Legs and wings reach full extension along abdomen. Enlarged initial segments of anterior pair Malpighian tubules move from thorax into abdomen. Translucent patch that lacks adhering fat body cells becomes discernible in the middle of the eye region. Pair of white Malpighian tubules becomes visible dorsally in the abdomen. Duration at 25 degrees C: approximately 66 minutes. (132.2-133.3 hours after egg laying; 12.2-13.3 hours after puparium formation)." "The directed movement of a motile cell or organism in response to physical parameters involved in energy generation, such as light, oxygen, and oxidizable substrates." "Phenotype that is a change in any kind of rate (e.g. speed, frequency) of any developmental process (GO:0032502) taking place prior to mature adulthood (defined as adult stage A3), compared to wild-type. Note, developmental processes include stages in development of the whole animal (e.g. larval development) as well as specific sub-processes, such as dorsal closure." - "Brain of the embryo that excludes the optic lobes. It includes the protocerebrum, deutocerebrum and tritocerebrum." "VFB:FBbt_00005662" "Any process that modulates the rate or extent of progress through the mitotic cell cycle." "The process during courtship where the male insect vibrates his wings. An example of this is found in Drosophila melanogaster." "Phenotype that is any abnormality in behavior (GO:0007610). 'behavior' is defined as: 'The internally coordinated responses (actions or inactions) of animals (individuals or groups) to internal or external stimuli, via a mechanism that involves nervous system activity.'" @@ -239,6 +240,7 @@ "The series of events required for an organism to receive a touch stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process. The perception of touch in animals is mediated by mechanoreceptors in the skin and mucous membranes and is the sense by which contact with objects gives evidence as to certain of their qualities. Different types of touch can be perceived (for example, light, coarse, pressure and tickling) and the stimulus may be external or internal (e.g. the feeling of a full stomach)." "Wikipedia:Touch" "Phenotype that is an decrease in any kind of rate (e.g. speed, frequency) of cell growth (GO:0016049) in a whole animal or in some specific organ tissue or clone of cells compared to wild-type." "Behavior in a larval form of an organism, an immature organism that must undergo metamorphosis to assume adult characteristics." + "Any sensillum of the larva." "UBERON:6007240" "A quality inhering in a bearer by virtue of the bearer's exhibiting no deviation from normal or average." "Phenotype that is any abnormality in establishment of planar polarity (GO:0001736). 'establishment of planar polarity' is defined as: 'Coordinated organization of groups of cells in the plane of an epithelium, such that they all orient to similar coordinates.'" "Embryonic/larval segmentation phenotype that is the complete or partial loss of odd segments." @@ -249,7 +251,7 @@ "A increase in the ability of a process to produce its output." "Phenotype that is any abnormality in long-term memory (GO:0007616). 'long-term memory' is defined as: 'The memory process that deals with the storage, retrieval and modification of information a long time (typically weeks, months or years) after receiving that information. This type of memory is typically dependent on gene transcription regulated by second messenger activation.'" "Anlage in statu nascendi of the visual system in a stage 5 embryo that will give rise to the visual system anlage." - "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." + "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." "Wikipedia:Primary_metabolite" "A physiological role played by any substance that is distributed in foodstuffs. It includes materials derived from plants or animals, such as vitamins or minerals, as well as environmental contaminants." "An atom belonging to one of the main groups (found in the s- and p- blocks) of the periodic table." "Water-holding capacity which inheres in some soil."@en @@ -263,7 +265,6 @@ "A segmental subdivision of the nervous system." "VFB:FBbt_00005140" "A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid)." "Wikipedia:Sexual_reproduction" "A biome which is subject to arid environmental conditions." - "Any antennal segment (FBbt:00000009) that is part of some larva (FBbt:00001727)." "UBERON:6001735" "Any p-block element atom that is in group 15 of the periodic table: nitrogen, phosphorus, arsenic, antimony and bismuth." "A substance that reduces or suppresses inflammation." "Development of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." "Wikipedia:Organogenesis" @@ -316,11 +317,12 @@ "\"Movement behavior of the body or its parts.\"" "Phenotype that is any abnormality in male courtship behavior, veined wing generated song production (GO:0045433). This is defined as 'The process during wing vibration where the male insect produces a species-specific acoustic signal called a love song.'" "A nutrient is a food component that an organism uses to survive and grow." + "Any procephalic segment of the embryo." "UBERON:6000158" "A compressed gas or liquid with a boiling point lower than room temperature which to used to propel and dispense liquids such as deodorants, insecticides, paints, etc. from aerosol cans." "Stage 15 begins with the appearance of the second midgut constriction. During this stage the 1st and 3rd midgut constrictions form, dorsal closure is completed, and epidermal segmentation is accomplished. This stage ends when the intersegmental grooves can be distinguished at mid-dorsal level. Duration at 25 degrees C: approximately 100 minutes (680-780 minutes after egg laying)." "A radiation process during which waves (or their quanta, photons) of the electromagnetic field propagate (radiate) through space carrying electromagnetic energy." "A phenotype of a population that is the death of the majority of animals in that population as immature adults (after eclosion but before the end of adult stage A3 (FBdv:00006012))." - "Neuromere of the embryonic supraesophageal ganglion, anterior to the subesophageal ganglion." "VFB:FBbt_00001062" + "Any head of the larva." "UBERON:6001730" "The memory process that deals with the storage, retrieval and modification of information received a short time (up to about 30 minutes) ago. This type of memory is typically dependent on direct, transient effects of second messenger activation." "Wikipedia:Short-term_memory" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals." "A biological role which describes how a drug interacts within a biological system and how the interactions affect its medicinal properties." @@ -337,11 +339,11 @@ "The second mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo." "A substance that removes electrons from another reactant in a redox reaction." "Phenotype that is any abnormality in the anatomy of the nervous system (FBbt:00005093). 'nervous system' is defined as: 'All the nerve centers and nerve fibers in the central, visceral and peripheral nervous systems.'" + "Integumentary system of the adult." "UBERON:6005396" "A phenotype of a population that is the death of a significant proportion of animals in that population during the P-stage." "A surface layer of an astronomical body which is primarily composed of solid material and is not covered by oceans or other bodies of water." "Any process that modulates the frequency, rate or extent of the division of the cytoplasm of a cell and its separation into two daughter cells." - "A collective term for stages 16 and 17." "UBERON:0000323" "The behavior of a male, for the purpose of attracting a sexual partner. An example of this process is found in Drosophila melanogaster." "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." "The specific behavior of an organism during the emergence from an egg shell. In Drosophila for example, the larva swings its head reiteratively through a semicircular arc, using its mouth hooks to tear apart the chorion in front of it and thus free itself from within the egg shell." @@ -349,6 +351,7 @@ "\"The coordination of combinations of body movements created with the kinematic (such as spatial direction) and kinetic (force) parameters that result in intended actions.\" [wikipedia:Motor_coordination]" "A fecundity which is relatively high." "Genotype g1 is a modifier of variegation if, and only if, some genotype g2 has a variegated phenotype and the degree of variegation caused by g1g2 is significantly different from that caused by g2 alone." + "Embryo that is in the process of gastrulation (encompassing embryonic stages 6-8), during which complex morphogenetic movements result in the formation of the three germ layers; ectoderm, mesoderm and endoderm (Hartenstein, 1993)." "FBdv:00005317 UBERON:0004734" "Imaginal disc that, in the adults, gives rise to the eye, antenna, head capsule (including all bristles and external membranes) and the maxillary palps (Cohen, 1993)." "UBERON:6001766" "The regionalization process in which the areas along the dorsal/ventral axis are established that will lead to differences in cell differentiation. The dorsal/ventral axis is defined by a line that runs orthogonal to both the anterior/posterior and left/right axes. The dorsal end is defined by the upper or back side of an organism. The ventral end is defined by the lower or front side of an organism." "The pupa is the name given to the organism at the period of the life cycle that begins once larval/pupal apolysis is complete, as indicated by the expulsion of the larval armature. Early in this stage the legs and wings reach full extension along the abdomen. The stage ends when the pupal cuticle separates from the underlying epidermis (pupal/adult apolysis), and the eye cup becomes yellow at its periphery. The duration of this stage is approximately 32 hours at 25 degrees C, and spans from 132.2-164.3 hours after egg laying, or is the period of 12.2-44.3 hours after puparium formation." "UBERON:0003143" @@ -358,7 +361,6 @@ "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of cell growth (GO:0016049) in a whole animal or in some specific organ tissue or clone of cells compared to wild-type." "Phenotype that is a defect in exocytosis (GO:0006887). 'exocytosis' is defined as: 'A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle. Exocytosis can occur either by full fusion, when the vesicle collapses into the plasma membrane, or by a kiss-and-run mechanism that involves the formation of a transient contact, a pore, between a granule (for exemple of chromaffin cells) and the plasma membrane. The latter process most of the time leads to only partial secretion of the granule content. Exocytosis begins with steps that prepare vesicles for fusion with the membrane (tethering and docking) and ends when molecules are secreted from the cell.'" "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of copulation (GO:0007620). 'copulation' is defined as: 'The act of sexual union between male and female, involving the transfer of sperm.'." - "A collective term for stages 9-12." "Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying)." "Deutocerebrum of the embryo/larva." "VFB:FBbt_00001957 larvalbrain_neuropil:515 larvalbrain_neuropil:337" "Phenotype that is a inability to jump. This may be due to neurological or muscular defects." @@ -366,9 +368,7 @@ "Male gonads become less distinct. Oral armature stops moving permanently. Dorsal medial abdominal contractions stop. Gas bubble becomes visible within abdomen. Duration at 25 degrees C: approximately 100 minutes. (120.3-122 hours after egg laying; 0.3-2 hours after puparium formation)." "A material part of an astronomical body." - "Any embryonic/larval sense organ (FBbt:00002639) that is part of some ocular segment (FBbt:00000005)." "UBERON:6002642 VFB:FBbt_00002642" "Oogenesis stage that begins when the micropyle begins to form. At the beginning of this stage, about 12-15 nurse cell nuclei remain at the anterior of the oocyte. By the end of this stage, none of these nuclei remain. Oocyte meiosis up to arrest at full metaphase I occurs during this stage." - "Any segment (FBbt:00000003) that is part of some larval head (FBbt:00001730)." "UBERON:6001732" "Permafrost which contains inclusions of water-based ice." "Any prokaryotic metabolite produced during a metabolic reaction in bacteria." "A liquid surface layer which is in contact with air." @@ -390,20 +390,18 @@ "Material anatomical entity consisting of multiple anatomical structures that are not connected to each other." "A phenotype that is a failure of mutant cells to survive." "The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory." "Wikipedia:Cognition" - "Embryonic stages 4 and 5." "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which, through specific morphogenetic processes, forms a single distinct structural unit demarcated by bona fide boundaries from other distinct structural units of different types." "CARO:0000055 UBERON:0000481" "A particle smaller than an atom." "Wikipedia:Subatomic_particle" "Stage which begins when wandering third instar larva stops crawling. The larva everts its anterior spiracles during this stage." - "Any neuromere (FBbt:00005140) that is part of some adult (FBbt:00003004)." "VFB:FBbt_00052718" "A fertility which is relatively high." - "Any tagma (FBbt:00000002) that is part of some larva (FBbt:00001727)." "UBERON:6001728" "Phenotype that is any abnormality in medium-term memory (GO:0072375). 'medium-term memory' is defined as: 'The memory process that deals with the storage, retrieval and modification of information received at a time ago that is intermediate between that of short and long term memory (30min - 7hrs in Drosophila melanogaster).'" "The surface layer of a volume of water." "SWEETRealm:SurfaceWater EcoLexicon:surface_water https://en.wikipedia.org/wiki/Surface_water" "Phenotype that is any abnormality in response to oxidative stress (GO:0006979). 'response to oxidative stress' is defined as: 'Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.'" + "Any labral segment of the larva." "UBERON:6001734" "A process during which one entity loses energy to another entity." + "Stage during which gastrulation occurs. During this stage, cells from the polar caps and the mid-ventral part of the blastoderm invaginate and ultimately generate the germ layers (Hartenstein, 1993). This encompasses embryonic stages 6-8 (Hartenstein, 1993)." "The extension, through direct muscle actions, of the proboscis (the trunk-like extension of the mouthparts on the adult external head) in response to a nutritional stimulus." - "A collective term for stages 1-4." "A collection of organisms, all of the same species, that live in the same place."@en "Particulate environmental material which is primarily composed of silt particles."@en "SWEETRealm:Silt EcoLexicon:silt https://en.wikipedia.org/wiki/Silt" "Any process in an organism in which a relatively long-lasting adaptive behavioral change occurs as the result of experience." "Wikipedia:Learning" @@ -428,6 +426,7 @@ "The establishment, maintenance and elaboration of a pattern along a line or around a point." "Hydrological precipitation is a process during which any product of the condensation of atmospheric water vapour is pulled to the planetary surface by gravity." "A phenotype of a population that is the death of a significant proportion of animals in that population during the pharate adult stage." + "Digestive system of the adult, comprising the alimentary canal, mouthparts, labellar glands, salivary glands and Malpighian tubules (Miller, 1950). The adult alimentary canal and salivary glands arise anew from precursors during metamorphosis (Bodenstein, 1950). The adult Malpighian tubules are remodelled from those of the larva (Bodenstein, 1950)." "The series of events required for an organism to receive a sensory chemical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." "A fertility quality inhering in a female by virtue of the bearer's disposition to initiate, sustain, or support reproduction." "Phenotype that is any abnormality in cell migration (GO:0016477). 'cell migration' is defined as: 'The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues.'" @@ -437,8 +436,6 @@ "Any process that modulates the frequency, rate or extent of anatomical structure morphogenesis." "Phenotype that is any abnormality in the size of cells in a whole animal or in some specific organ, tissue or clone of cells compared to wild-type." - "Any segment (FBbt:00000003) that is part of some embryo (FBbt:00000052)." "UBERON:6000154" - "Any developing material anatomical entity (FBbt:00007006) that is part of some embryo (FBbt:00000052)." "UBERON:0002050" "A solid layer which is primarily composed of some water-based ice." "A molecular entity that can transfer an electron to another molecular entity." "An object which is composed primarily of an environmental material"@en @@ -457,7 +454,6 @@ "Phenotype that is any abnormality in immune response (GO:0006955). 'immune response' is defined as: 'Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.'" "Phenotype that is an increase in the size of cells compared to wild-type." "A region rendered barren or partially barren by environmental extremes, especially by low rainfall." "https://en.wikipedia.org/wiki/Desert LTER:147 FTT:1 TGN:21201 SWEETRealm:Desert FTT:188 EcoLexicon:desert Geonames:T.DSRT" - "Any tagma (FBbt:00000002) that is part of some adult (FBbt:00003004)." "UBERON:6003005" "Any process that modulates the frequency, rate or extent of cell motility." "Any process that modulates the frequency, rate or extent of locomotor rhythm." "An anatomical system consisting of all of the anatomical entities that function in some part of the sensory perception of sound." @@ -525,10 +521,10 @@ "The sudden, usually upward, movement off the ground or other surface through sudden muscular effort in the legs, following exposure to an external stimulus." "Nervous system of the embryo/larva." "UBERON:6001911 VFB:FBbt_00001911" "The sixth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo." + "Any labral segment of the adult." "UBERON:6003011" "Phenotype that is any abnormality in eclosion (GO:0007562). 'eclosion' is defined as: 'The emergence of an adult insect from a pupa case.'" "Sensillum that is internal to the animal - i.e. having no part that is part of the cuticle." "UBERON:6007233 VFB:FBbt_00007233" - "Any segment (FBbt:00000003) that is part of some larva (FBbt:00001727)." "UBERON:6001729" "An anatomical structure that has more than one cell as a part." "A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition." "A temporal subdivision of a developmental process." @@ -546,7 +542,7 @@ "Oogenesis stage during which 9-11 nurse cell nuclei remain at the anterior of the oocyte. During this stage, the nuclear membrane of the oocyte nucleus disappears, indicating the start of meiotic pro-metaphase." "UBERON:0011216" "Any process that modulates the frequency, rate or extent of response to wounding." - "Any ocular segment (FBbt:00000005) that is part of some larva (FBbt:00001727)." "UBERON:6001731" + "Any tagma of the embryo." "UBERON:6000137" "A layer which separates two portions of environmental material which possess 1) differing compositions, 2) a discontinuity of some property, or 3) some derivative of some property in a direction normal to the interface."@en "Phenotype that is any abnormality in entry into diapause (GO:0055115). 'entry into diapause' is defined as: 'The dormancy process that results in entry into diapause. Diapause is a neurohormonally mediated, dynamic state of low metabolic activity. Associated characteristics of this form of dormancy include reduced morphogenesis, increased resistance to environmental extremes, and altered or reduced behavioral activity. Full expression develops in a species-specific manner, usually in response to a number of environmental stimuli that precede unfavorable conditions. Once diapause has begun, metabolic activity is suppressed even if conditions favorable for development prevail. Once initiated, only certain stimuli are capable of releasing the organism from this state, and this characteristic is essential in distinguishing diapause from hibernation.'" "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of cell adhesion (GO:0007155). 'cell adhesion' is defined as: 'The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.'" @@ -555,16 +551,18 @@ "Dorsal thoracic microchaetes and macrochaetes become visible. Duration at 25 degrees C: approximately 80 minutes (194.6-195.5 hours after egg laying; 74.6-75.9 hours after puparium formation)." "The behavior of an organism pertaining to movement of the eyes and of objects in the visual field, as in nystagmus." "Central nervous system of the adult." "UBERON:6003623 VFB:FBbt_00003623" - "Any head (FBbt:00000004) that is part of some embryo (FBbt:00000052)." "UBERON:0008816" + "Any developing material anatomical entity of the embryo." "UBERON:0002050" "A phenotype that is a decreased occurrence of cell division (GO:0051301). 'cell division' is defined as 'The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.'." "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of copulation (GO:0007620). 'copulation' is defined as: 'The act of sexual union between male and female, involving the transfer of sperm.'." "Anatomical structure that is a primary subdivision of whole organism. The mereological sum of these is the whole organism." "CARO:0000032 UBERON:0000475" "Oogenesis stage that begins when the oocyte chromosomes condense into a karyosome attached to a distinctive spherical structure known as an endobody. The oocyte nucleolus disappears completely. During this stage, nurse cell ploidy reaches 16C." + "Any head of the embryo." "UBERON:0008816" "An environmental material which is primarily composed of minerals, varying proportions of sand, silt, and clay, organic material such as humus, interstitial gases, liquids, and a broad range of resident micro- and macroorganisms."@en "SWEETRealm:Soil SPIRE:Soil https://en.wikipedia.org/wiki/Soil LTER:535" "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." "The bearer of this quality has_part < n AND has_part > 0 of the indicated entity type, where n is the normal amount for a comparable organism. Note that the bearer of the quality is the whole, not the part. Formally: If a bearer entity e has fewer parts of type X at time t, then the number of instances x of X at t such that x part_of e is < n, where n is either the normal number for comparable entities, or n is stated explicitly." "Self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." "A phenotype that is a reduction in the ability to produce fertilized eggs as a result of mating to below 50% of wild-type." + "Stage prior to the formation of the syncitial blastoderm, including the first 9 cell divisions and the migration of nuclei to the periphery (cortex) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). This lasts from fertilization to embryonic stage 3 (Campos-Ortega and Hartenstein, 1997)." "Self-ionizing solvent possessing both characteristics of Bronsted acids and bases." "Phenotype that is any abnormality in cell adhesion (GO:0007155). 'cell adhesion' is defined as: 'The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.'" "A quality of a process inhering in a bearer by virtue of the bearer's lacking a processual part as specified by the additional entity." @@ -583,6 +581,7 @@ "A freezing process during which liquid water is transformed into water ice." "Phenotype that is abnormal co-ordination of motor activity." "A mass which is lower than normal or average." + "Any larval sense organ (FBbt:00002639) that is part of some ocular segment (FBbt:00000005)." "UBERON:6002642 VFB:FBbt_00002642" "A solid astronomical body part which is part of the landmass of that body." "Oogenesis stage which begins when yolk first appears in the oocyte. Follicle cell migration over the oocyte begins during this stage (although mostly occurs during stage 9)." "Land which is below the freezing point of water." "http://sweetontology.net/realmCryo/FrozenGround" @@ -593,7 +592,6 @@ "Phenotype characterized by closely associated necrosis and melanization." "Earliest stage of ovarian cyst development - lasts while the 16 cell cyst is within the germarium (region 3)." "Third instar larva from the beginning of wandering to the beginning of puparium formation." - "Any embryonic/larval sense organ (FBbt:00002639) that is part of some labral segment (FBbt:00000008)." "VFB:FBbt_00002649" "Any compound that has anti-inflammatory effects." "A phenotype of a population that is the death of all animals in that population at some stage or stages before the end of the pupal stage." @@ -601,6 +599,7 @@ "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of grooming behavior (GO:0007625). 'grooming behavior' is defined as: 'The specific behavior of an organism relating to grooming, cleaning and brushing to remove dirt and parasites.'." "A material accumulation process during which ice forms in an environmental material or an existing accumulation of ice increases in mass." "http://sweetontology.net/phenCryo/Accumulation" "A temperature which is relatively low." + "Stage during which the nucleus of the fertilized egg performs 13 rapid divisions, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface and then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 1-4 (Hartenstein, 1993)." "Phenotype that is any abnormality in learning (GO:0007612). 'learning' is defined as: 'Any process in an organism in which a relatively long-lasting adaptive behavioral change occurs as the result of experience.'" "Phenotype that is a decrease in the efficacy of medium-term memory (GO:0072375) relative to controls. 'medium-term memory' is defined as: 'The memory process that deals with the storage, retrieval and modification of information received at a time ago that is intermediate between that of short and long term memory (30min - 7hrs in Drosophila melanogaster).'" "A rate of output of a continuous process that is relatively low." @@ -615,6 +614,7 @@ "The part of some organism that is part of some specified segment." "UBERON:6007331" "Anlage of the visual system in the gastrula embryo that will give rise to the visual primordium." "A viscosity quality inhering in a bearer by virtue of the bearer's having viscosity." + "Any head segment of the larva." "UBERON:6001732" "Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell via two nuclear divisions." "Wikipedia:Meiosis" "A phenotype that is an increase in the rate of death in a population at any stage of life (during development or adulthood), over the rate seen in a wild type control population." @@ -627,7 +627,6 @@ "A shape that inheres in a 3 dimensional entity." "A phenotype of a population that is the death of the majority of animals in that population during the prepupal stage." - "Epidermal pouch in the embryonic head that incorporates the acron and dorsal regions of the head segments. It forms following the movement of the dorsal fold over the clypeolabrum and procephalic lobe." "Any process that modulates the rate, frequency or extent of the behavior associated with the intake of food." "Any sensillum (FBbt:00007152) that is part of some adult head (FBbt:00003007)." "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism involving those compounds formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." @@ -643,7 +642,7 @@ "A division of the whole organism into specialized systems." "UBERON:0000467" "Temporal subdivision of life based on time elapsed since some key developmental transition, such as fertilization, hatching or eclosion." "A position which is relatively high." - "UBERON:0005423" + "UBERON:0005423 CARO:0000066" "Precursor structure that can be recognized based on its distinct morphology and will give rise to one or more differentiated structures (Tomancak et al., 2002; Hartenstein, 2004). It develops from an anlage and may contain smaller anlage and primordia that will produce substructures (Tomancak et al., 2002)." "UBERON:0001048" "Any process that modulates the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." "Any group of similar imaginal cells, such as an imaginal disc, imaginal ring or imaginal island, or a precursor tissue that forms one of them. These tissues develop separately from other embryonic and larval tissues and they generate adult structures during metamorphosis." @@ -656,9 +655,10 @@ "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." "Tarsal bristles darken and claws become black. Duration at 25 degrees C: approximately 3 hours, 20 minutes. (198.6-201.9 hours after egg laying; 78.6-81.9 hours after puparium formation)." - "Any procephalic segment (FBbt:00000007) that is part of some adult (FBbt:00003004)." "UBERON:6003010" "Any process that modulates the frequency, rate or extent of a circadian rhythm. A circadian rhythm is a biological process in an organism that recurs with a regularity of approximately 24 hours." "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of larval locomotory behavior (GO:0008345). 'larval locomotory behavior' is defined as: 'Locomotory behavior in a larval (immature) organism.'." + "Any ocular segment of the adult." + "Life stage that begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997)." "Any process that modulates the frequency, rate, or extent of an immune system process." "The pattern specification process that results in the subdivision of an axis or axes in space to define an area or volume in which specific patterns of cell differentiation will take place or in which cells interpret a specific environment." "A temperature which is relatively high." @@ -678,7 +678,6 @@ "A cluster of cells of various types which form a discrete structure with a largely bona fide boundary." "UBERON:0010001" "Stage which starts when the operculum opens and ends when eclosion is completed. Duration at 25 degrees C: approximately 24 minutes. (219.6-220 hours after egg laying; 99.6-100 hours after puparium formation)." "An endolithic environment is an environment that exists within solid rock." - "Any ocular segment (FBbt:00000005) that is part of some embryo (FBbt:00000052)." "Primordium of the late embryo that develops from the early primordium, and will give rise to the adult eye." "A material entity which is composed of one or more chemical entities and has neither independent shape nor volume but tends to expand indefinitely." "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of chemosensory behavior (GO:0007635). 'chemosensory behavior' is defined as: 'Behavior that is dependent upon the sensation of chemicals.'." @@ -691,7 +690,6 @@ "Phenotype that is any abnormality in or absense of proboscis extension reflex in response to a sugar stimulus via taste sensilla on the tarsus." "The series of events required for an organism to receive a gustatory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Gustation involves the direct detection of chemical composition, usually through contact with chemoreceptor cells. This is a neurological process." "Wikipedia:Taste" - "Any sense organ (FBbt:00005155) that is part of some larva (FBbt:00001727)." "VFB:FBbt_00002639 UBERON:6002639" "Anlage that develops into the ventral ectoderm. It is found in the lateroventral trunk region of the embryo at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020)." "Intended use of the molecular entity or part thereof by humans." "Any process that modulates the frequency, rate or extent of animal organ morphogenesis." @@ -709,17 +707,15 @@ "Embryonic structure that will develop into a larval imaginal tissue, which will later form an adult structure (Cohen, 1993)." "UBERON:6001648" "Material anatomical entity generated by coordinated expression of the organism's own genome and whose component parts are not all continuous with each other." "UBERON:0034923" "The division of a cell nucleus into two nuclei, with DNA and other nuclear contents distributed between the daughter nuclei." - "A phenotype of a population that is the death of all animals in that population during the first instar larval stage." - "A collective term for stages 6-8, during which complex morphogenetic movements result in the formation of the three germ layers; ectoderm, mesoderm and endoderm." "UBERON:0004734" "A planet which has a surface layer that nearly completely or completely covered by ice, and which has a substantial portion of its mass composed of ice." - "A collective term for stages 13-15." "An environmental system which includes both living and non-living components." "LTER:173" "A substance used in a chemical reaction to detect, measure, examine, or produce other substances." "The atmospheric boundary layer is the lowest layer of an atmosphere which is strongly influenced by its contact with a planetary surface with strong vertical mixing and in which physical quantities such as flow velocity, temperature, and moisture display rapid fluctuations (turbulence)." "The series of events that restore integrity to a damaged tissue, following an injury." "Wikipedia:Wound_healing" "Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." "An epithelium consisting of columnar shaped cells." "UBERON:0000485" + "Any sensillum of the adult." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of nutrients." "Portion of the adult central nervous system found in the head, consisting of the cerebral and gnathal ganglia (Ito et al., 2014)." "UBERON:6003624 VFB:FBbt_00003624" "A phenotype in which the aging process is slower than in wild-type." @@ -749,7 +745,6 @@ "Phenotype that is any abnormality in short-term memory (GO:0007614). 'short-term memory' is defined as: 'The memory process that deals with the storage, retrieval and modification of information received a short time (up to about 30 minutes) ago. This type of memory is typically dependent on direct, transient effects of second messenger activation.'" "A planetary structural layer is laminar part of a terrestrial planet or other rocky body large enough to have differentiation by density. Planetary layers have differing physicochemical properties and composition." "Eyes become bright red. Orbital and ocellar bristles and vibrissae darken. Duration at 25 degrees C: approximately 6 minutes. (194.5-194.6 hours after egg laying; 74.5-74.6 hours after puparium formation)." - "Any sensillum (FBbt:00007152) that is part of some larva (FBbt:00001727)." "UBERON:6007240" "A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter." "A reproductive behavior that results in the deposition of eggs (either fertilized or not) upon a surface or into a medium such as water." "Wikipedia:Oviposition" @@ -778,7 +773,6 @@ "Phenotype that is any abnormality in flight (GO:0060361). 'flight' is defined as: 'Self-propelled movement of an organism from one location to another through the air, usually by means of active wing movement.'" "An organismal quality inhering in a bearer by virtue of the bearer's disposition to synthesize a particular organic compound required for its growth." "A cell found in an organism or derived from an organism exhibiting a phenotype that deviates from the expected phenotype of any native cell type of that organism. Abnormal cells are typically found in disease states or disease models." "https://ncit.nci.nih.gov/ncitbrowser/ConceptReport.jsp?dictionary=NCI_Thesaurus&code=C12913" - "Any head (FBbt:00000004) that is part of some larva (FBbt:00001727)." "UBERON:6001730" "A layer which is composed primarily of some fluid." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." "Nuclear divisions 3-8. The egg cytoplasm contracts producing a clear separation from the vitelline membrane and empty spaces at the anterior and posterior. The cleavage nuclei migrate towards the periphery. Duration at 25 degrees C approximately 40 minutes (25-65 minutes AEL)." @@ -791,6 +785,7 @@ "The last stage of oogenesis. This stage begins when no nurse cell nuclei remain at the anterior of the egg (chamber). Exochorion formation and secretion occurs during this stage. The dorsal appendages complete their elongation and the follicle cells die." "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." "Ice which is primarily composed of carbon dioxide." + "Any segment of the larva." "UBERON:6001729" "Stage 6 begins when the ventral furrow becomes apparent, an event which is followed rapidly by the formation of the cephalic furrow. Stage 6 ends when the pole cells have adopted a dorsal (horizontal) position at the posterior. Duration at 25 degrees C: approximately 10 minutes (170-180 minutes after egg laying)." "A multi-species collection of organisms of at least two different species, living in a particular area. Must have at least two populations of different species as members."@en "An occurrence which is relatively low." @@ -805,7 +800,6 @@ "A quality inhering in a bearer by virtue of the bearer's having or lacking of substances produced by living organisms that have a color resulting from selective color absorption." "A layer in a water mass, itself composed primarily of water." "Phenotype that is any abnormality in eclosion rhythm (GO:0008062). 'eclosion rhythm' is defined as: 'The timing of the emergence of the adult fly from its pupal case, which usually occurs at dawn.'" - "Deutocerebrum of the embryo. It is the middle one of the three supraesophageal neuromeres, posterior to the protocerebrum and anterior to the tritocerebrum. It is part of the antennal segment." "VFB:FBbt_00001067" "Hours 4-6 of embryonic stage 17 at 25'C. (Approximately 20-22 hours at 25'C after egg laying)." "A organ system process carried out by any of the organs or tissues of neurological system." "An anatomical entity that has mass." @@ -823,7 +817,6 @@ "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." "A reproductive quality inhering in a bearer by virtue of the bearer's initiating, sustaining, or supporting reproduction." "Any process in which external signals modulate the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." - "Comprising somatic and visceral muscles, the muscle system consist of a multitude of contractile fibers arranged in groups and layers." "The developing adult after pupal-adult apolysis, i.e. from stage P8 (when yellow eye color first becomes visible through the pupal case), to eclosion." "UBERON:6006011" "The directed movement of a motile cell or organism in response to gravity." @@ -849,7 +842,6 @@ "The directed movement of a motile cell or organism in response to an external stimulus." "Wikipedia:Taxis" "Substance that attaches to and blocks cell receptors that normally bind naturally occurring substances." - "Any tagma (FBbt:00000002) that is part of some embryo (FBbt:00000052)." "UBERON:6000137" "A optical quality inhering in a bearer by virtue of the bearer's not being clear; not transmitting or reflecting light or radiant energy." "Bubble is displaced to anterior end of the puparium, and pupa withdraws to the posterior end. Imaginal head sac is everted and the oral armature of the larva is expelled. Duration at 25 degrees C: approximately 12 minutes. (132-132.2 hours after egg laying; 12-12.2 hours after puparium formation)." @@ -860,6 +852,7 @@ "The series of events in which a light stimulus (in the form of photons) is received and converted into a molecular signal." "The amount of a nitrogen atom when measured in environmental material." "A macromolecule formed by a living organism." + "Any nervous system of the adult." "UBERON:6003559 VFB:FBbt_00003559" "An oxide is a chemical compound of oxygen with other chemical elements." "." "UBERON:0007023" "The sum of all the structures in the embryo that will develop into the embryonic/larval nervous system." "UBERON:6001055" @@ -877,17 +870,13 @@ "Phenotype that is any abnormality in mitotic cell cycle (GO:0000278). 'mitotic cell cycle' is defined as: 'Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.'" "A temporal subdivision of a Drosophila life, delimited by major transitions in the circumstances of the organism, such as: fertilization; hatching; pupal ecdysis; eclosion." "Phenotype that is any abnormality in sensory perception of taste (GO:0050909). 'sensory perception of taste' is defined as: 'The series of events required for an organism to receive a gustatory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Gustation involves the direct detection of chemical composition, usually through contact with chemoreceptor cells. This is a neurological process.'" - "Stages during which gastrulation occurs. 6-8." "Phenotype that is any abnormality in sensory perception of sound (GO:0007605). 'sensory perception of sound' is defined as: 'The series of events required for an organism to receive an auditory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Sonic stimuli are detected in the form of vibrations and are processed to form a sound.'" "In general, a mineral is a chemical substance that is normally crystalline formed and has been formed as a result of geological processes. The term also includes metamict substances (naturally occurring, formerly crystalline substances whose crystallinity has been destroyed by ionising radiation) and can include naturally occurring amorphous substances that have never been crystalline ('mineraloids') such as georgite and calciouranoite as well as substances formed by the action of geological processes on bigenic compounds ('biogenic minerals')." "Wikipedia:Mineral" "One of the two nuclear divisions that occur as part of the meiotic cell cycle." - "A(n) primordium that develops into some embryonic protocerebrum." "Anterior, bulbous portion of the eye-antennal disc that gives rise to the eye as well as contributing to the head capsule (Cohen, 1993)." "A cell that moves by its own activities." - "Any labral segment (FBbt:00000008) that is part of some larva (FBbt:00001727)." "UBERON:6001734" "WebElements:He" "The series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." "Wikipedia:Perception" - "Any nervous system (FBbt:00005093) that is part of some adult (FBbt:00003004)." "UBERON:6003559 VFB:FBbt_00003559" "The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." "An ecosystem in which the composition, structure, and function of resident ecological assemblages are primarily determined by a desert."@en "Hadron is a subatomic particle which experiences the strong force." @@ -900,16 +889,14 @@ "A solid material whose constituents, such as atoms, molecules or ions, are arranged in a highly ordered microscopic structure, forming a crystal lattice that extends in all directions." "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of mating behavior (GO:0007617). 'mating behavior' is defined as: 'The behavioral interactions between organisms for the purpose of mating, or sexual reproduction resulting in the formation of zygotes.'." "A physical process during which atoms, molecules, or other consituents of a material entity are forced closer together." - "The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon." - "Any sensillum (FBbt:00007152) that is part of some adult (FBbt:00003004)." "An astronomical body part which is composed primarily of environmental materials in their frozen form."@en "http://sweetontology.net/realm/Cryosphere" "Phenotype that is a change in the amount of cell death in a whole animal or in some specific organ tissue or clone of cells compared to wild-type. This may be due to effects on the regulation of cell death (GO:0010941) or in cell death (GO:0008219) pathways themselves." "A role is particular behaviour which a material entity may exhibit." "The specific behavior of an organism that is associated with reproduction." - "A collective term for stages 3-5." "A morphological quality inhering in a bearer by virtue of the bearer's ratios of distances between its features (points, edges, surfaces and also holes etc)." "KEGG:C01328 PDBeChem:OH" "Oogenesis stage that begins when all the oocyte associated follicular epithelium is columnar and all of the nurse cell associated follicular epithelium is completely squamous and ends with the beginning of nurse cell dumping." + "Structure consisting of the embryonic/larval foregut, midgut and hindgut." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to the organism." "The series of events in which an (non-living) abiotic stimulus is received by a cell and converted into a molecular signal." "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of jump response (GO:0007630). 'jump response' is defined as: 'The sudden, usually upward, movement off the ground or other surface through sudden muscular effort in the legs, following exposure to an external stimulus.'." @@ -921,8 +908,7 @@ "A part of an astronomical body which is primarily composed of liquid material."@en "The process during courtship where the male insect extends his wings. An example of this process is found in Drosophila melanogaster." "A mitotic cell cycle process comprising the steps by which the nucleus of a eukaryotic cell divides; the process involves condensation of chromosomal DNA into a highly compacted form. Canonically, mitosis produces two daughter nuclei whose chromosome complement is identical to that of the mother cell." - "Nervous system of the pupa." "VFB:FBbt_00110192" - "Any labral segment (FBbt:00000008) that is part of some embryo (FBbt:00000052)." + "Any neuromere of the adult." "VFB:FBbt_00052718" "Neuropil mass above the larval esophagus consisting of the protocerebral and deutocerebral neuromeres and part of the tritocerebrum." "VFB:FBbt_00051070" "A food additive that is a (generally inert) gas which is used to envelop foodstuffs during packing and so protect them from unwanted chemical reactions such as food spoilage or oxidation during subsequent transport and storage. The term includes propellant gases, used to expel foods from a container." "Wikipedia:Packaging_gas" "The increase in size or mass of an entire organism, a part of an organism or a cell." @@ -960,7 +946,6 @@ "A female fertility which is relatively low." "A quality of a single process inhering in a bearer by virtue of the bearer's occurrence." - "Any ocular segment (FBbt:00000005) that is part of some adult (FBbt:00003004)." "Phenotype that is any abnormality in aging." "A reproductive quality inhering in an organism or population by virtue of the bearer's potential reproductive capacity ad measured by the number of gametes." "The prepupal stage begins at puparium formation and ends when larval/pupal apolysis is complete, as indicated by the completion of imaginal head sac eversion and the expulsion of the oral armature of the larva. Duration at 25 degrees C: approximately 12 hours. (120-132.2 hours after egg laying; 0-12.2 hours after puparium formation)." @@ -972,6 +957,7 @@ "A landform which occurs on the surface of an astronomical body."@en "The process in which the anatomical structures of a tissue are generated and organized." "An environmental zone which is bounded by material parts of a land mass or the atmosphere or space adjacent to it." + "Embryo prior to the formation of the syncitial blastoderm, shortly after nuclear cycle 9 (Foe and Alberts, 1983; Jaeger et al., 2012). This period lasts from fertilization to the end of embryonic stage 3 (Campos-Ortega and Hartenstein, 1997)." "FBdv:00005290" "A multicellular anatomical structure that is associated with an embryo and derived from the zygote from which it develops, but which does not contribute to the embryo proper or to structures that are part of the same organism after embryogenesis." "Neuropil mass below the esophagus in the adult brain. It encompasses the gnathal ganglion, the prow and the saddle." "VFB:FBbt_00110639" "A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude." @@ -1050,6 +1036,7 @@ "Any polyatomic entity that is an electrically neutral entity consisting of more than one atom." "Any molecular entity that contains carbon." "A phenotype of a population that is the death of all animals in that population at some stage or stages before the end of the second instar larval stage." + "Apodeme that is part of the late embryo/larva. Apodemes are not a continuous structure, but are split into two halves. In the embryo, this break is visible laterally. In the larva, the dorsal and ventral halves in the thoracic and abdominal segments are staggered, with the dorsal part being posterior to the ventral one." "The series of events involved in sensory perception in which a sensory stimulus is received and converted into a molecular signal." "Wikipedia:Transduction_(physiology)" "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of locomotory behavior (GO:0007626). 'locomotory behavior' is defined as: 'The specific movement from place to place of an organism in response to external or internal stimuli. Locomotion of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions.'." "An astronomical body part which includes all the living entities within the gravitational sphere of influence of that body, as well as the non-living and dead entities with which they interact."@en @@ -1085,6 +1072,7 @@ "Any process that modulates the rate, frequency, or extent of the series of events that restore integrity to a damaged tissue, following an injury." "Primordium of the late extended and dorsal closure embryo that gives rise to the larval Bolwig organ. It corresponds to the most posterior region that develops from the visual primordium." "UBERON:6005830" "Phenotype that is a decrease in the total amount or frequency of feeding behavior (GO:0007631) over a given time interval, compared to wild-type. 'feeding behavior' is defined as: 'Behavior associated with the intake of food.'" + "Any ocular segment of the embryo." "A boundary layer is a layer of fluid in the immediate vicinity of a bounding surface where the effects of viscosity are significant enough to distort the surrounding non-viscous flow." "A structural quality inhering in a bearer by virtue of the bearer's being thicker or more closely packed together; pressed tightly together." "The series of events required for an organism to receive a sensory mechanical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." @@ -1094,6 +1082,7 @@ "A structural quality inhering in the bearer by virtue of the bearer consisting of a single, maximally connected structure." "A phenotype of a population that is the death of some significant proportion of animals in that population prior to becoming a mature adult, where mature is defined as after adult stage A3 (FBdv:00006012)." "The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." + "Stage during which most of the nuclei are arranged as a monolayer at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). It begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997)." "Phenotype that is any abnormality in locomotor rhythm (GO:0045475). 'locomotor rhythm' is defined as: 'The rhythm of the locomotor activity of an organism during its 24 hour activity cycle.'" "The amount of a nitrogen atom when measured in water." "Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The gut is divided into foregut, midgut and hindgut regions, based on developmental origin." @@ -1102,13 +1091,11 @@ "An area of a planet's surface which is primarily composed of bedrock, desert pavement, scarp rock, talus, material exposed by slides, volcanic material, glacial debris, sand, material exposed during strip mining, gravel, and other accumulations of earthen material in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction." "NLCD:31" "A high temperature environment is an environment in which material entities are exposed to increased levels of heat radiation or which have molecules or atoms moving randomly with increased levels of average kinietic energy." "A layer that is part of the atmosphere." - "Anlage in statu nascendi of the embryonic central brain in a stage 5 embryo. It will give rise to the central brain anlage." "The amount of a carbon atom when measured in environmental material." "A molecular entity all atoms of which have the same atomic number." "The anterior spiracles are fully everted, with 7-9 finger-like projections. The body shortens, withdrawing three apparent abdominal segments and the larva sticks to its substrate." "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of adult walking behavior (GO:0007628). 'adult walking behavior' is defined as: 'The behavior of an adult relating to the progression of that organism along the ground by the process of lifting and setting down each leg.'." "A mass of solid material which is either 1) a minute fragment of a larger mass or 2) one of a collection of small masses composing an aggregate." - "A(n) primordium that develops into some lateral head epidermis. It develops from some central brain anlage." "Anlage of the ventral apodeme of the late extended germ band embryo that will give rise to the ventral apodeme primordium." "A quality inhering in a bearer by virtue of its constitution." "Any substance which is added to food to preserve or enhance its flavour and/or appearance." "Wikipedia:Food_additive" @@ -1123,10 +1110,9 @@ "Particulate environmental material which is composed primarily of particles of sand with only minor proportions of other substances."@en "EcoLexicon:sand SWEETRealm:Sand LTER:484 https://en.wikipedia.org/wiki/Sand" "A material which is composed primarily of one or more pure metals and which shows their properties." "A material transport process during which a volume of liquid water is transported due to a disequilibria in physical forces."@en - "Any neuromere (FBbt:00005140) that is part of some embryo (FBbt:00000052)." "VFB:FBbt_00052717" "A planet that is composed primarily of silicate rocks or metals." "A physical quality of a fluid inhering in a bearer by virtue of the bearer's disposition to internal resistance to flow." - "Embryonic stage 1-3." + "Any digestive system of the larva." "UBERON:6001842" "An environmental process which has water - in any of its states - as a participant." "Phenotype that is any abnormality in feeding behavior (GO:0007631). 'feeding behavior' is defined as: 'Behavior associated with the intake of food.'" "A planet which has a surface layer that nearly completely or completely covered by water, and which has a substantial portion of its mass composed of water." @@ -1142,9 +1128,8 @@ "A phenotype of a population that is the death of the majority of animals in that population during the P-stage." "A fluid surface layer which is composed primarily of some gaseous material."@en "Neuropil mass below the esophagus encompassing the three gnathal neuromeres and any regions of the cephalic (supraesophageal) neuromeres situated below the esophagus (Ito et al., 2014)." "VFB:FBbt_00051068" + "Any antennal segment of the larva." "UBERON:6001735" "An decrease in porosity." - "Primordium that develops into a region of head epidermis." - "Any segment (FBbt:00000003) that is part of some embryonic head (FBbt:00000155)." "UBERON:6000157" "Phenotype that is an increase in body weight compared to identically raised wild-type controls." "A biological process that directly contributes to the process of producing new individuals, involving another organism." "Phenotype that is a decrease in any kind of rate (e.g. speed, frequency) of adult locomotory behavior (GO:0008344). 'adult locomotory behavior' is defined as: 'Locomotory behavior in a fully developed and mature organism.'." @@ -1153,6 +1138,7 @@ "Solvent that is capable of acting as a hydron (proton) acceptor." "A planetary mantle is a planetary layer which is an interior part of a terrestrial planet or other rocky body large enough to have differentiation by density." + "Stage following germ band retraction, during which dorsal closure happens (Hartenstein, 1993). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997)." "The series of events involved in visual perception in which a light stimulus is received and converted into a molecular signal." "The rhythm of the locomotor activity of an organism during its 24 hour activity cycle." "A physical quality of the thermal energy of a system." @@ -1164,7 +1150,6 @@ "The sum of all the structures in the embryo that will develop into the embryonic/larval integumentary system." "Phenotype that is any abnormality in the shape (PATO:0000052) of some cell compared to wild-type." - "The stage of the Drosophila life-cycle from fertilization to hatching." "A hardness quality of being rigid and resistant to pressure." "Phenotype that consists of abnormal growth of a tissue or organ due to increased numbers of cells, but in which the affected tissue or organ does not maintain its normal form." "Primordium of the early extended germ band embryo that will give rise to the larval Bolwig organ, larval optic anlage and adult eye. It is a dorsoposterior strip of the embryonic procephalon that invaginates at stages 12-13. It can be subdivided into 4 different regions. The most anterior gives rise to the embryonic primordium of adult eye. Posterior to it, the anterior lip develops into the embryonic inner optic lobe primordium, that will give rise to the larval inner optic anlage. Posteriorly, the posterior lip develops into the embryonic outer optic lobe primordium, that will give rise to the larval outer optic anlage. The most posterior region will develop into the Bolwig organ primordium." "UBERON:6001059" @@ -1176,10 +1161,10 @@ "An mass of environmental material which is composed primarily of a solid environmental material"@en "A female fertility quality inhering in a female by virtue of the bearer's being incapable of initiating, sustaining, or supporting reproduction." "Phenotype that is a defect in endocytosis (GO:0006897). 'endocytosis' is defined as: 'A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.'" - "Apodeme that is part of the embryo/larva. Apodemes are not a continuous structure, but are split into two halves. In the embryo, this break is visible laterally. In the larva, the dorsal and ventral halves in the thoracic and abdominal segments are staggered, with the dorsal part being posterior to the ventral one." "A phenotype that is a reduction in the ability of females to produce fertilized eggs as a result of mating, but only to > 50% of wild-type." "Developmental stage that starts with ovulation, at the end of oogenesis, until the egg is fertilized by a sperm." + "Any labral segment of the embryo." "Tanning of the tergites obscures the Malpighian tubules and the 'yellow body'. Legs begin to twitch; fly is able to walk if puparium is removed prematurely. Ptilinum expands by hydrostatic pressure, opening the operculum. Duration at 25 degrees C: approximately 8 hours, 6 minutes. (211.5-219.6 hours after egg laying; 91.5-99.6 hours after puparium formation)." "An occurrence which is relatively high." "A phenotype of female sterility due to defects in somatic cells of the ovary (FBbt:00006030), or of the products of these cells (such as eggshell)." @@ -1190,6 +1175,7 @@ "A drug that affects the rate or intensity of cardiac contraction, blood vessel diameter or blood volume." "A propellant that is used to expel foods from an aerosol container." "An anthropogenic environment is an environmental system which is the product of human activity." + "Any sense organ of the adult." "VFB:FBbt_00004113" "The eukaryotic cell cycle in which a cell is duplicated without changing ploidy, occurring in the embryo." "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pain stimulus. Pain stimuli cause activation of nociceptors, peripheral receptors for pain, include receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli." "Any molecule that consists of at least one carbon atom as part of the electrically neutral entity." @@ -1246,12 +1232,14 @@ "The creation of two or more organelles by division of one organelle." "A surface layer where the solid or liquid material of an astronomical body comes into contact with an atmosphere or outer space." "A process during which energy is emitted or transmitted in the form of waves or particles through space or a material medium." + "Any tagma of the adult." "UBERON:6003005" "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base)." "KEGG:C00701" "Stage 13 begins at the completion of germ-band retraction, when the prospective anal plate occupy the posterior pole. The dorsal ridge becomes apparent externally; the clypeolabrum retracts, leaving a triangular shaped gap at the anterior pole; the labium moves to the ventral midline. This stage ends when head involution begins. Duration at 25 degrees C: Approximately 60 minutes (560-620 minutes after egg laying)." "A phenotype that is the ability to produce fertilized eggs as a result of mating." "The directed movement of a motile cell or organism in response to a temperature gradient. Movement may be towards either a higher or lower temperature." "Wikipedia:Thermotaxis" "Particulate environmental material which 1) is composed primarily of clay particles, with only minor proportions of other materials, 2) demonstrates plasticity when wet, and 3) is capable of hardening when dried or fired."@en "EcoLexicon:clay SWEETRealm:Clay" "Phenotype that is a reduction in size of an organ or tissue compared to wild-type due to reduced numbers of cells being produced during its development or growth." + "Any head segment of the embryo." "UBERON:6000157" "A phenotype of a population that is the death of all animals in that population at some stage or stages prior to becoming a mature adult, where mature is defined as after adult stage A3 (FBdv:00006012)." "An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." "KEGG:C00174" "Newly eclosed adult stage. Animal free of pupal case. Runs rapidly to find site for wing expansion. Wings are folded back and black against a very pale abdomen." @@ -1272,6 +1260,7 @@ "A viscosity which relatively high." "Stage 7 begins when the pole cells have adopted a dorsal (horizontal) position at the posterior. Invagination of the anterior and posterior midgut and hindgut follows. The 'discoid plate' that carries the pole cells forms a pocket. Transverse furrows (dorsal folds) form on the dorsal surface. This stage ends when the anterior wall of the amnioproctodeal invagination starts moving anteriorly and the pole cells are no longer visible externally. Duration at 25 degrees C: approximately 10 minutes (180-190 minutes after egg laying)." + "Any tagma of the larva." "UBERON:6001728" "Sex combs darken in males. Wings darken to black. Duration at 25 degrees C: approximately 65 minutes. (197.5-198.6 hours after egg laying; 77.5-78.6 hours after puparium formation)." "The process in which the anatomical structures of epithelia are generated and organized. An epithelium consists of closely packed cells arranged in one or more layers, that covers the outer surfaces of the body or lines any internal cavity or tube." "Head of the adult organism." "UBERON:6003007 https://www.ento.csiro.au/biology/drosophila/melanogaster.html?head" @@ -1284,7 +1273,6 @@ "Adult brain excluding the optic lobes. This consists of the cerebrum and the gnathal ganglion." "VFB:FBbt_00047887" "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." "Wikipedia:Physical_property" "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides." - "Any procephalic segment (FBbt:00000007) that is part of some larva (FBbt:00001727)." "UBERON:6001733" "Morphogenesis of an animal organ. An organ is defined as a tissue or set of tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." "KEGG:C00007 WebElements:O" "Oogenesis stage that begins when nurse cell dumping begins and development of the wax layer begins. The dorsal appendages begin to form during this stage. This stage ends when dying nurse cells form an anterior cap to the oocyte." @@ -1317,7 +1305,6 @@ "Any anatomical entity (FBbt:10000000) that develops from some anterior ectoderm (FBbt:00000119)." "A phenotype of a population that is the death of the majority of animals in that population during the pupal stage." - "Epidermal pouch in the head of the embryo or larva." "A quality of a single process inhering in a bearer by virtue of the bearer's being uninterrupted in time, sequence, substance, or extent." "Primordium of the denticle field of the dorsal closure embryo that will give rise to the larval denticle fields." "Phenotype that is any abnormality in courtship behavior (GO:0007619). 'courtship behavior' is defined as: 'The behavior of an organism for the purpose of attracting sexual partners.'" @@ -1332,17 +1319,16 @@ "Plate or plates that surrounds the anus." "Phenotype that is any abnormality in or loss of a stereotypical behavioral response to touch." + "Embryo during the dorsal closure stage, which corresponds to stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997)." "FBdv:00005331" "A planet is an astronomical body orbiting a star or stellar remnant that is massive enough to be rounded by its own gravity, is not massive enough to cause thermonuclear fusion, and has cleared its neighbouring region of planetesimals." "A resistance to a stimulus which is relatively high." "The series of events in which a stimulus is received by a cell or organism and converted into a molecular signal." "The temperature of some air." - "A collective term for stages 13-15." "A planet which is primarily composed of hydrogen and helium." "An anatomical structure that has no cells or cell parts as a part." "Phenotype that is any abnormality in sleep (GO:0030431). 'sleep' is defined as: 'Any process in which an organism enters and maintains a periodic, readily reversible state of reduced awareness and metabolic activity. Usually accompanied by physical relaxation, the onset of sleep in humans and other mammals is marked by a change in the electrical activity of the brain.'" - "Anlage of the embryonic central brain in the gastrula embryo that will give rise to the central brain primordium." "A phenotype of a population that is the death of a significant proportion of animals in that population during the pupal stage." "UBERON:6057001" "The process during wing vibration where the male insect produces a species-specific acoustic signal called a love song." @@ -1352,7 +1338,6 @@ "An anatomical system consisting of all of the anatomical entities that function in some part of the sensory perception of mechanical stimuli." "Segment of the adult head." "UBERON:6003009" "Any molecular entity consisting of more than one atom." - "Any labral segment (FBbt:00000008) that is part of some adult (FBbt:00003004)." "UBERON:6003011" "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" "Any process that modulates the frequency, rate or extent of multicellular organismal development." "Any process that modulates the frequency, rate or extent of embryonic development." @@ -1362,11 +1347,12 @@ "A temporal distribution pattern of process occurrences within a regulation/reference process." "A collective term for stages 9 and 10." - "Portion of tissue, that consists of one or more layers of cells with distinct apical-basal polarity, connected to each other by cell junctions." "UBERON:0000483 CARO:0000066" + "Portion of tissue, that consists of one or more layers of cells with distinct apical-basal polarity, connected to each other by cell junctions." "UBERON:0000483" "Germ band retraction. Stage 12 begins when germ-band retraction starts and ends when this process is complete so that the prospective anal plate occupies the posterior pole. During this stage the posterior and anterior midgut primordia meet and fuse and the tracheal pits fuse to form the tracheal tree. Duration at 25 degrees C: approximately 120 minutes (440-560 minutes after egg laying)." "Phenotype that is an increase or decrease in the number of cells in a whole animal or in some specific organ, tissue or clone of cells compared to wild-type. This phenotype is not necessarily accompanied by defects in cell growth - there may be a greater or lesser number of cells in an otherwise normal volume of tissue." "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." "Tissue composed of epithelial cells. It secretes and underlies the cuticle." "UBERON:0007376" + "Embryo during stages 9-12." "FBdv:00005321" "A material entity which 1) is spatially continuous, 2) is composed of material of comparable thickness, composition, and physical properties, and 3) is physically distinct from adjacent portions of environmental material."@en "Phenotype that is an increase in any kind of rate (e.g. speed, frequency) of flight behavior (GO:0007629). 'flight behavior' is defined as: 'The response to external or internal stimuli that results in the locomotory process of flight. Flight is the self-propelled movement of an organism through the air.'." "An individual member of the species Drosophila melanogaster." "CARO:0000012 NCBITaxon:7227 UBERON:0000468" @@ -1390,9 +1376,7 @@ "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." "Wikipedia:Reproduction" "Any process that modulates the frequency, rate, or extent of the self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." - "The chemical reactions and pathways involving organic cyclic compound." "Phenotype that is a decrease in the number of cells in a whole animal or in some specific organ, tissue or clone of cells compared to wild-type. This phenotype is not necessarily accompanied by decreased growth - there may be fewer cells in an otherwise normal volume of tissue." "Formation of specialized endochorion structures in the anterior of the follicle: branches in the developing dorsal appendages; compact endochorion lacking the pillars seen in the rest of the follicle." - "Any antennal segment (FBbt:00000009) that is part of some adult (FBbt:00003004)." "UBERON:6003012" "A size quality which is relatively high." "UBERON:0000465 CARO:0000006" diff --git a/src/ontology/reports/chado_load_check_simple.txt b/src/ontology/reports/chado_load_check_simple.txt index 757d2cc..c9722ee 100644 --- a/src/ontology/reports/chado_load_check_simple.txt +++ b/src/ontology/reports/chado_load_check_simple.txt @@ -1,3 +1,3 @@ FBcv:0007533 ! increased rate of proboscis extension reflex has unnapproved def_dbxref type: FB:FBrf0044924 -FBcv:0000680 ! abnormal proboscis extension reflex has unnapproved def_dbxref type: FB:FBrf0044924 FBcv:0007545 ! decreased rate of proboscis extension reflex has unnapproved def_dbxref type: FB:FBrf0044924 +FBcv:0000680 ! abnormal proboscis extension reflex has unnapproved def_dbxref type: FB:FBrf0044924 diff --git a/src/ontology/reports/class-count-by-prefix.tsv b/src/ontology/reports/class-count-by-prefix.tsv index 61e7ac7..b21e66d 100644 --- a/src/ontology/reports/class-count-by-prefix.tsv +++ b/src/ontology/reports/class-count-by-prefix.tsv @@ -1,7 +1,7 @@ ?prefix ?numberOfClasses "ENVO" 206 "OBI" 1 -"FBbt" 230 +"FBbt" 216 "CARO" 19 "FBdv" 125 "BFO" 16 @@ -10,7 +10,7 @@ "NBO" 17 "PCO" 7 "" 2 -"GO" 239 +"GO" 237 "CL" 4 "PATO" 134 "CHEBI" 139 diff --git a/src/ontology/reports/edges.tsv b/src/ontology/reports/edges.tsv index 37198b9..72d851b 100644 --- a/src/ontology/reports/edges.tsv +++ b/src/ontology/reports/edges.tsv @@ -1,967 +1,962 @@ ?x ?p ?y - 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- - - - - - - - - - - - - - - - - - - - - - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1614 - - + + + + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid748 @@ -1318,13 +1313,12 @@ - - - + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid2319 @@ -1338,8 +1332,8 @@ - + @@ -1347,15 +1341,15 @@ + - + - @@ -1363,7 +1357,6 @@ - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1550 @@ -1398,22 +1391,21 @@ - - + + - - + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid662 - @@ -1441,14 +1433,15 @@ - + + @@ -1468,6 +1461,7 @@ + @@ -1478,12 +1472,13 @@ - + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid1273 @@ -1492,8 +1487,8 @@ - + @@ -1507,9 +1502,9 @@ - - + + @@ -1520,6 +1515,7 @@ + @@ -1529,6 +1525,7 @@ + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid668 @@ -1546,15 +1543,14 @@ - + - @@ -1562,8 +1558,8 @@ - + @@ -1572,9 +1568,9 @@ + - @@ -1597,8 +1593,8 @@ - + @@ -1610,12 +1606,12 @@ + + - - @@ -1629,22 +1625,20 @@ - - + + - -_:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 @@ -1655,8 +1649,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -1680,13 +1674,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + - - + + @@ -1694,13 +1688,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -1708,14 +1702,14 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - + - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1283 - + + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid2012 @@ -1731,11 +1725,11 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + + - @@ -1743,13 +1737,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - + + @@ -1758,15 +1752,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - + - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid668 @@ -1780,16 +1772,15 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 + - - + - @@ -1803,19 +1794,18 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1346 + - - + @@ -1834,8 +1824,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -1862,24 +1852,24 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 + - + - - + - + @@ -1891,15 +1881,15 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid2167 - - + @@ -1909,8 +1899,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -1930,10 +1920,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1924 - @@ -1948,11 +1936,10 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + - @@ -1969,21 +1956,22 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 + - + - + @@ -1996,12 +1984,10 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - + - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid105 @@ -2009,11 +1995,11 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - + + @@ -2038,11 +2024,9 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - @@ -2050,13 +2034,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - + + @@ -2069,8 +2053,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -2084,6 +2068,7 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 +_:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid4168 @@ -2101,13 +2086,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + + - @@ -2124,9 +2109,7 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - @@ -2149,8 +2132,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -2177,9 +2160,9 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - + @@ -2195,22 +2178,19 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4168 - - - + -_:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 @@ -2220,11 +2200,10 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - - + @@ -2234,13 +2213,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - + - + @@ -2250,8 +2229,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - + @@ -2259,8 +2238,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - + @@ -2273,14 +2252,14 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 + - - + @@ -2303,10 +2282,9 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - + - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1359 @@ -2316,16 +2294,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - - - + + - - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid1372 @@ -2345,7 +2320,6 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - @@ -2361,17 +2335,17 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - - - + + - + - + + @@ -2396,14 +2370,13 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 - - + @@ -2417,20 +2390,21 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4184 + - + - +_:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid4160 + -_:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 @@ -2448,11 +2422,11 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid1526 @@ -2460,7 +2434,6 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - @@ -2469,8 +2442,8 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - + @@ -2483,11 +2456,10 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - - - + + @@ -2506,28 +2478,26 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - - + - + - - - + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid2030 @@ -2536,18 +2506,18 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - - + - +_:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid4152 + @@ -2557,12 +2527,10 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - - @@ -2575,25 +2543,25 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 + - - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid876 - - + + + - + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid105 @@ -2602,33 +2570,32 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 + + - - + - + - - - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid2521 + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid1336 @@ -2644,13 +2611,12 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - - + @@ -2689,6 +2655,7 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid1900 @@ -2710,31 +2677,30 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - + + - - - - + + - + @@ -2745,19 +2711,18 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 + - + - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid662 - _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid2308 @@ -2767,15 +2732,16 @@ _:B08c55a00X2Dac5aX2D41cbX2D976eX2D64fc2bb267dcgenid4176 - + + _:B1f6e0923X2D4909X2D4102X2DbadbX2Dd97b2df93377genid2606 diff --git a/src/ontology/reports/obo_qc_dpo.owl.txt b/src/ontology/reports/obo_qc_dpo.owl.txt index 6098999..8bfa336 100644 --- a/src/ontology/reports/obo_qc_dpo.owl.txt +++ b/src/ontology/reports/obo_qc_dpo.owl.txt @@ -11,15 +11,8 @@ WARN duplicate_definition FBbt:00005306 IAO:0000115 Nuclear division 10-13. Pola WARN duplicate_definition FBdv:00005306 IAO:0000115 Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying). WARN duplicate_definition FBbt:00014201 IAO:0000115 A collective term for stages 9 and 10. WARN duplicate_definition FBdv:00014201 IAO:0000115 A collective term for stages 9 and 10. -WARN duplicate_definition FBbt:00005331 IAO:0000115 A collective term for stages 13-15. -WARN duplicate_definition FBdv:00005331 IAO:0000115 A collective term for stages 13-15. WARN duplicate_definition FBbt:00004450 IAO:0000115 A collective term for stages 11 and 12. WARN duplicate_definition FBdv:00004450 IAO:0000115 A collective term for stages 11 and 12. -WARN duplicate_definition FBbt:00000054 IAO:0000115 A collective term for stages 1-4. -WARN duplicate_definition FBdv:00000054 IAO:0000115 A collective term for stages 1-4. -WARN duplicate_definition FBbt:00000052 IAO:0000115 . -WARN duplicate_definition FBbt:00003004 IAO:0000115 . -WARN duplicate_definition FBbt:00105220 IAO:0000115 . WARN duplicate_exact_synonym GO:0007632 oboInOwl:hasExactSynonym WARN duplicate_exact_synonym NBO:0000314 oboInOwl:hasExactSynonym WARN duplicate_exact_synonym GO:0007610 oboInOwl:hasExactSynonym @@ -158,7 +151,6 @@ WARN missing_definition CHEBI:52625 IAO:0000115 WARN missing_definition ENVO:00000344 IAO:0000115 WARN missing_definition ENVO:01001782 IAO:0000115 WARN missing_definition FBbt:00001727 IAO:0000115 -WARN missing_definition FBbt:00005290 IAO:0000115 WARN missing_definition FBbt:00007006 IAO:0000115 WARN missing_definition FBbt:00007013 IAO:0000115 WARN missing_definition FBbt:00007016 IAO:0000115 @@ -239,9 +231,7 @@ INFO lowercase_definition BFO:0000062 IAO:0000115 x is preceded by y if and only INFO lowercase_definition BFO:0000063 IAO:0000115 x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.@en INFO lowercase_definition BFO:0000066 IAO:0000115 b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t@en INFO lowercase_definition BFO:0000067 IAO:0000115 [copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t@en -INFO lowercase_definition FBbt:00000052 IAO:0000115 . INFO lowercase_definition FBbt:00003004 IAO:0000115 . -INFO lowercase_definition FBbt:00105220 IAO:0000115 . INFO lowercase_definition NBO:0000016 IAO:0000115 "\""Behavior relate to the usually upward movement off the ground or other surface through sudden muscular effort in the legs.\"" [GO:0007630]" INFO lowercase_definition NBO:0000313 IAO:0000115 "\""The action, reaction, or performance of an organism in response to external or internal stimuli.\"" [GO:GO\:0007610]" INFO lowercase_definition NBO:0000314 IAO:0000115 "\""Behavior related to the actions or reactions of an organism in response to a visual stimulus.\"" [GO:0007632]" diff --git a/src/ontology/reports/robot_simple_diff.txt b/src/ontology/reports/robot_simple_diff.txt index fc43a93..545af24 100644 --- a/src/ontology/reports/robot_simple_diff.txt +++ b/src/ontology/reports/robot_simple_diff.txt @@ -1,11 +1,11 @@ 4 axioms in left ontology but not in right ontology: -- Annotation( "http://dx.doi.org/10.1186/2041-1480-4-30"^^xsd:string) -- Annotation( "13:06:2024 12:35"^^xsd:string) -- Annotation(owl:versionInfo "2024-06-13"^^xsd:string) -- OntologyID(OntologyIRI() VersionIRI()) +- Annotation( "08:08:2024 12:59"^^xsd:string) +- Annotation(owl:versionInfo "2024-08-08"^^xsd:string) +- AnnotationAssertion(Annotation( "FBC:DOS"^^xsd:string) Annotation( "GOC:mah"^^xsd:string) Annotation( "ISBN:0815316194"^^xsd:string) "Phenotype that is any abnormality in mitotic cell cycle (GO:0000278). 'mitotic cell cycle' is defined as: 'Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.'"^^xsd:string) +- OntologyID(OntologyIRI() VersionIRI()) 4 axioms in right ontology but not in left ontology: -+ Annotation( "http://dx.doi.org/10.1186/2041-1480-4-30"^^xsd:string) -+ Annotation( "25:04:2024 13:28"^^xsd:string) -+ Annotation(owl:versionInfo "2024-04-25"^^xsd:string) -+ OntologyID(OntologyIRI() VersionIRI()) ++ Annotation( "13:06:2024 12:35"^^xsd:string) ++ Annotation(owl:versionInfo "2024-06-13"^^xsd:string) ++ AnnotationAssertion(Annotation( "FBC:DOS"^^xsd:string) Annotation( "GOC:mah"^^xsd:string) Annotation( "ISBN:0815316194"^^xsd:string) Annotation( "Reactome:69278"^^xsd:string) "Phenotype that is any abnormality in mitotic cell cycle (GO:0000278). 'mitotic cell cycle' is defined as: 'Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.'"^^xsd:string) ++ OntologyID(OntologyIRI() VersionIRI()) diff --git a/src/ontology/reports/synonyms.tsv b/src/ontology/reports/synonyms.tsv index 02f4ce2..869f45a 100644 --- a/src/ontology/reports/synonyms.tsv +++ b/src/ontology/reports/synonyms.tsv @@ -164,8 +164,8 @@ "abnormal visual behavior" "response to pain" "axis specification" - "abnormal mating rhythm" "increased rate of jump response"@en + "abnormal mating rhythm" "abnormal cell size" "decreased efficacy of long-term memory"@en "hyperplasia" @@ -181,10 +181,10 @@ "decreased occurrence of cell division" "female sterile" "jumpless" + "eclosion rhythm" "decreased efficacy of learning"@en "decreased rate of movement" "abnormal flight" - "eclosion rhythm" "increased efficacy" "entry into diapause" "increased rate of cell adhesion"@en @@ -239,10 +239,10 @@ "abnormal jump response" "increased rate of movement" "abnormal feeding behavior" - "copulation" "abnormal osmotic stress response" "increased sleep"@en "abnormal touch response" + "copulation" "abnormal hatching behavior" "male semi-fertile" "sensory perception of smell" @@ -256,9 +256,9 @@ "abnormal phototaxis" "fertile" "locomotor rhythm" - "male semi-sterile" "abnormal wound healing" "abnormal cell adhesion" + "male semi-sterile" "decreased rate" "optokinetic behavior" "abnormal mating" @@ -275,8 +275,8 @@ "increased efficacy of short-term memory"@en "abnormal cell growth" "increased occurrence" - "increased efficacy of long-term memory"@en "decreased rate of adult walking behavior"@en + "increased efficacy of long-term memory"@en "medium-term memory" "abnormal oxidative stress response" "memory" @@ -335,9 +335,9 @@ "decreased rate of chemosensory behavior"@en "semi-fertile" "size" - "abnormal dorsal/ventral axis specification" "radiation"@en "abnormal stress response" + "abnormal dorsal/ventral axis specification" "eye" "response to stress" "abnormal proboscis extension reflex" @@ -368,8 +368,8 @@ "suppressor of variegation" "sense organ" "segment polarity phenotype" - "compound cell cluster organ" "melanotic necrosis" + "compound cell cluster organ" "external sensory organ" "pair rule phenotype" "odd pair-rule phenotype" @@ -408,6 +408,7 @@ "solvent" "disposition"@en "pnictogen" + "adult integumentary system" "sensation behavior" "gut" "application" @@ -422,16 +423,15 @@ "regulation of behavior" "frozen" "developmental growth" + "embryonic/larval alimentary canal" "environmental system determined by a quality"@en "role"@en "visual anlage in statu nascendi" - "head epidermis primordium" "regulation of cellular response to stress" "adult central nervous system" "helium planet"@en "trophic quality" "system process" - "central brain anlage" "embryonic head segment" "decreased object quality" "liquid water" @@ -449,7 +449,6 @@ "hardness" "mass of ice and snow"@en "oogenesis stage S4" - "embryonic supraesophageal neuromere" "decreased position" "larval head segment" "embryonic stage 17(i)" @@ -486,7 +485,6 @@ "entity"@en "developmental growth involved in morphogenesis" "oogenesis stage S14B" - "embryonic deutocerebrum" "temporal distribution quality" "anterior-posterior subdivision of organism" "adult protocerebrum" @@ -542,7 +540,6 @@ "immaterial anatomical entity" "particle of sand"@en "weather front"@en - "embryonic head epidermis" "embryonic ventral apodeme" "increased viscosity" "sensory system" @@ -562,14 +559,13 @@ "regulation of immune system process" "reproductive process" "quality of a gas" - "embryonic/larval sense organ" + "larval sense organ" "sediment surface"@en "mass of solid material"@en "aquatic layer" "adult labral segment" "pharate adult stage P14" "snow crystal"@en - "lateral head epidermis" "integumentary specialization" "rate of continuous process" "regulation of response to stress" @@ -612,13 +608,11 @@ "heteroorganic entity" "larval behavior" "snow mass"@en - "dorsal pouch" "embryonic imaginal tissue" "head" "organooxygen compound" "Escherichia coli metabolite" "ecological community"@en - "embryonic dorsal pouch" "increased position" "anthropogenic ecosystem conversion process"@en "regulation of nervous system process" @@ -656,15 +650,15 @@ "atmospheric process"@en "gustatory system" "oxidising agent" - "regulation of developmental growth" "dioxygen" "amount of carbon atom in soil" + "regulation of developmental growth" "lithosphere"@en "macronutrient" "male courtship behavior" "pharate adult stage P9" - "hard" "adult gut" + "hard" "decreased fertility" "desublimation process"@en "multicellular organismal reproductive process" @@ -732,11 +726,10 @@ "larval antennal segment" "wandering third instar larval stage" "biological process" - "regulation of locomotion" "physical quality of a process" + "regulation of locomotion" "liquid accumulation process"@en "cellular component organization" - "organic substance metabolic process" "denticle field" "elemental pnictogen" "liquid air-water interface layer"@en @@ -756,7 +749,7 @@ "DNA damage response" "labral segment" "embryonic/larval head sense organ" - "embryonic/larval central nervous system" + "larval central nervous system" "process efficacy" "late extended germ band embryo" "material transformation process"@en @@ -798,7 +791,6 @@ "prokaryotic metabolite" "regulation of biological process" "freezing"@en - "pupal nervous system" "regulation of embryonic development" "physical object quality" "non-connected developing system" @@ -824,7 +816,6 @@ "subatomic particle" "water-holding capacity of soil"@en "regulation of primary metabolic process" - "embryonic protocerebrum" "occurrence" "terrestrial locomotory behavior" "liquid surface layer"@en @@ -852,8 +843,8 @@ "auditory behavior" "baryon" "porosity of soil" - "terrestrial biome" "antagonist" + "terrestrial biome" "polar front"@en "molecular entity" "adult brain" @@ -912,10 +903,10 @@ "regulation of mitotic cell cycle, embryonic" "hydroxides" "embryonic epidermis" - "embryonic/larval apodeme" + "larval apodeme" "onium compound" - "anatomical structure development" "tissue morphogenesis" + "anatomical structure development" "regulation of multicellular organismal process" "organism" "compound astronomical body part"@en @@ -932,10 +923,11 @@ "gastrula embryo" "regulation of sensory perception" "group" - "walking behavior" - "embryonic procephalic segment" "oogenesis stage S11" + "embryonic procephalic segment" + "larval digestive system" "tissue regeneration" + "walking behavior" "process"@en "embryonic stage 15" "regulation of cell division" @@ -945,14 +937,13 @@ "male courtship behavior, veined wing extension" "quality of a substance" "detection of visible light" - "germ layer derivative" "adult head segment" - "embryonic/larval nervous system" + "germ layer derivative" + "larval nervous system" "multicellular organismal response to stress" - "regulation of cellular process" "oogenesis stage S5" + "regulation of cellular process" "regulation of animal organ morphogenesis" - "embryonic central brain" "atmospheric water vapour" "mitotic cell cycle, embryonic" "lacks parts or has fewer parts of type" @@ -981,9 +972,9 @@ "normal" "pupal stage P5(ii)" "cryospheric layer"@en - "adult deutocerebrum" "particle of silt" "visual system" + "adult deutocerebrum" "pharate adult" "extra or missing processual parts" "Bronsted acid" @@ -991,18 +982,18 @@ "male fertility" "developmental stage" "visual primordium" - "lateral head epidermis primordium" "late embryonic stage" - "pupal/adult digestive system" + "adult digestive system" "desert sand" "energy taxis" "terrestrial natural environment"@en "lepton" "disconnected anatomical group" "regulation of entry into reproductive diapause" - "sediment environment"@en "qualitative" + "sediment environment"@en "carbon group element atom" + "embryonic/larval gut" "donor" "cell" "biochemical role" @@ -1019,8 +1010,8 @@ "larval ocular segment sense organ" "gaseous astronomical body part"@en "supraesophageal zone" - "embryonic ocular segment" "oogenesis stage S10A" + "embryonic ocular segment" "propellant" "integumentary system" "embryonic stage 14" @@ -1036,14 +1027,13 @@ "material congelation process"@en "pharate adult stage P15(ii)" "ventral neurectoderm" - "visual behavior" "water vapour" "adult age in days" + "visual behavior" "atmospheric zone"@en "embryonic stage 13" "neuromere" "environmental system process quality" - "adult muscle system" "astronomical body"@en "nucleobase-containing compound metabolic process" "regulation of nucleobase-containing compound metabolic process" @@ -1053,7 +1043,7 @@ "decreased porosity" "multi-cell-part structure" "single-species collection of organisms"@en - "embryonic/larval sensillum" + "larval sensillum" "quality of a liquid" "internal sense organ" "stellar radiation"@en @@ -1063,7 +1053,7 @@ "biological role" "chalcogen hydride" "desert area" - "embryonic/larval brain" + "larval brain" "amount of carbon atom in environmental material" "amount of carbon atom in water" "central nervous system" @@ -1088,9 +1078,9 @@ "embryo" "embryonic stage 5" "clay" + "anatomical structure morphogenesis" "oogenesis stage S14A" "hatching" - "anatomical structure morphogenesis" "chalcogen molecular entity" "ventral epidermis primordium" "embryonic stage 7" @@ -1111,7 +1101,6 @@ "oxygen atom" "multi-organism reproductive process" "Bolwig organ primordium" - "central brain anlage in statu nascendi" "third instar larval stage L2" "learning or memory" "cryoform"@en @@ -1132,7 +1121,6 @@ "embryonic/larval cuticle" "environmental material" "stage 5 embryo" - "central brain primordium" "gaseous environmental material"@en "nuclear division" "pre-blastoderm embryo" @@ -1193,7 +1181,7 @@ "boundary layer"@en "porous" "gas planet"@en - "embryonic/larval integumentary system" + "larval integumentary system" "neoplastic cell" "stage 4 embryo" "main group molecular entity" @@ -1225,7 +1213,6 @@ "organochalcogen compound" "altered number of" "soil" - "muscle system" "heavy snowfall"@en "adult cerebrum" "population of organisms"@en @@ -1248,8 +1235,8 @@ "part of a landmass"@en "detection of light stimulus" "pre-blastoderm stage" - "second instar larval stage" "position" + "second instar larval stage" "hydrides" "noble gas molecular entity" "procephalic segment" @@ -1280,8 +1267,8 @@ "hydrological precipitation process"@en "amphiprotic solvent" "immaterial entity"@en - "cellular anatomical structure"@en "resistant to" + "cellular anatomical structure"@en "prepupal stage P4" "anthropogenic terrestrial biome" "lacks all parts of type" @@ -1300,18 +1287,15 @@ "early extended germ band stage" "diazynediium" "porosity of snow" - "organic cyclic compound metabolic process" "molecule" "surface landform"@en "animal organ development" "optical quality" - "embryonic neuromere" "ectoderm anlage" "early third instar larval stage" "vestibular behavior" - "protocerebrum primordium" - "non-connected functional system" "locomotion" + "non-connected functional system" "inorganic group" "drug" "regulation of reproductive process" @@ -1471,14 +1455,12 @@ "group 15 elements" "pnictogenes" "nitrogenoides" + "adult external" "imago" "eye-antennal disc specific anlage" "ground" "A0Vis" - "HeadEpiP3" "nutritional quality" - "procephalic ectoderm anlage" - "AProcEC" "pupal stage" "imaginal disk" "PP" @@ -1683,7 +1665,6 @@ "argon" "regulation of circadian rhythm phase" "subatomic particles" - "procephalic lobe" "mitotic cell cycle regulator" "atmospheric layering" "pattern biosynthesis" @@ -1696,10 +1677,10 @@ "hydroxyl" "hydroxyl group" "baryons" - "terrestrial realm" "antagonista" "antagonists" "antagoniste" + "terrestrial realm" "molecular entities" "entidades moleculares" "entidad molecular" @@ -1798,6 +1779,7 @@ "Bronsted-Saeure" "acide de Bronsted" "P2 VisSys" + "pupal/adult digestive system" "leptons" "cristallogene" "group IV elements" @@ -1853,8 +1835,6 @@ "oxigeno" "oxygen" "8O" - "procephalic ectoderm anlage in statu nascendi" - "A0ProcEC" "white prepupa" "Earth-like planet" "P2 VenEc" @@ -1864,8 +1844,6 @@ "homoatomic molecule" "EcosytemType" "cellular blastoderm embryo" - "procephalic ectoderm primordium" - "ProcEcP2" "karyokinesis" "p-block molecular entitiy" "p-block compounds" @@ -1959,7 +1937,6 @@ "molecules" "molecula" "geographic feature"@en - "ProtP3" "inorganic groups" "medicine" "drugs" @@ -2051,14 +2028,10 @@ "metabolism resulting in cell growth" "multicellular organism metabolic process" "metabolic process resulting in cell growth" - "P2 HeadEpL" - "P1 HeadEpL" "embryonic/larval ocular segment sensillum" "solar radiation" "multicellular organismal macromolecule metabolic process" "adult supraesophageal ganglion" - "P1 Cen Br" - "P3 CenBr" "gas" "multicellular organism reproductive behavior" "multi-organism reproductive behavior" @@ -2353,8 +2326,8 @@ "high fecundity" "reduced rate of chemosensory behavior" "decreased rate of chemosensitive behavior" - "dorsal/ventral axis specification defective" "stress response defective" + "dorsal/ventral axis specification defective" "proboscis extension reflex defective" "negative taxis in response to gravity" "negative geotactic behavior" @@ -2375,6 +2348,7 @@ "abnormal endocytosis" "melanotic 'tumor'" "environmental material nitrogen atom amount" + "adult integument" "perception behavior" "behavior involving perception" "response to environmental stimulus" @@ -2387,7 +2361,6 @@ "Asn VisSys" "adult CNS" "organ system process" - "A CenBr" "response to nutrients" "environment" "larval labral segment sense organ" @@ -2398,10 +2371,6 @@ "midbrain" "low viscosity" "differential growth" - "embryonic deutocerebral neuromere" - "neuromere b2" - "embryonic deuterocerebral neuromere" - "embryonic deuterocerebrum" "cell cycle modulation" "regulation of cell cycle progression" "cell cycle regulation" @@ -2439,7 +2408,7 @@ "pregnathal neuroectoderm" "procephalic neuroectoderm" "gaseous" - "larval sense organ" + "embryonic/larval sense organ" "surface sediment" "surface of a sedimentary mass" "mature bristles stage" @@ -2448,7 +2417,6 @@ "embryogenesis" "embryonal development" "syncytial blastoderm stage" - "syncytial blastoderm" "physiological response to wounding" "water temperature" "regulation of morphogenesis" @@ -2518,9 +2486,6 @@ "cellular component organization in other organism" "cellular component organization at cellular level" "cellular component organisation in other organism" - "organic substance metabolism" - "organic molecular entity metabolism" - "organic molecular entity metabolic process" "elemental pnictogen" "s-block molecular entity" "neurological system process" @@ -2531,8 +2496,8 @@ "cellular response to DNA damage stimulus" "cellular DNA damage response" "larval head sense organ" + "embryonic/larval central nervous system" "embryonic/larval CNS" - "larval central nervous system" "DNA metabolism" "cellular DNA metabolism" "electron" @@ -2555,7 +2520,6 @@ "pupal stage P11(i)" "head bristles stage" "soil water-holding capacity"@en - "neuromere b1" "incidence" "regulation of progression through mitotic cell cycle" "mitotic cell cycle regulation" @@ -2585,6 +2549,7 @@ "stimulus detection" "hot" "high temperature" + "gastrulation stage" "gastrula" "yellow body stage" "A VisSys" @@ -2600,7 +2565,7 @@ "regulation of embryonic mitotic cell cycle" "regulation of embryonic mitotic cell cycle progression" "embryonic mitotic cell cycle regulation" - "larval apodeme" + "embryonic/larval apodeme" "development of an anatomical structure" "organism or virus or viroid" "mineral" @@ -2623,8 +2588,10 @@ "sensory transduction of light stimulus" "sensory detection of light stimulus" "water composition" + "gastrulation stage embryo" + "embryonic/larval digestive system" "male courtship behaviour, veined wing extension" - "larval nervous system" + "embryonic/larval nervous system" "regulation of cellular physiological process" "atmospheric water vapor" "loss of" @@ -2640,9 +2607,9 @@ "cell locomotion" "movement of a cell" "white Malpighian tubules stage" - "adult deuterocerebrum" "granule of silt"@en "grain of silt"@en + "adult deuterocerebrum" "optic lobe placode" "optic lobe primordium" "taxis in response to energy source" @@ -2670,12 +2637,12 @@ "P2 VenEc" "VenEc" "ventral neurogenic region" - "behavioral response to visual stimulus" - "visual behaviour" - "behavioural response to visual stimulus" "water vapor" "aqueous vapour" "aqueous vapor" + "behavioral response to visual stimulus" + "visual behaviour" + "behavioural response to visual stimulus" "atmospheric area" "contracted germ band stage" "quality of environmental system process" @@ -2683,15 +2650,15 @@ "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolism" "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" - "larval sensillum" + "embryonic/larval sensillum" "liquidity" "chalcogen hydride" "larval supraesophageal ganglion" - "larval brain" "larval SPG" "embryonic/larval supraesophageal ganglion" "larval cerebral ganglion" "embryonic/larval supraesophageal complex" + "embryonic/larval brain" "embryonic/larval SPG" "environmental material carbon atom amount" "water carbon atom amount" @@ -2705,7 +2672,6 @@ "moving bubble stage" "pupal stage P4(ii)" "cellular blastoderm stage" - "cellular blastoderm" "anatomical structure organization" "morphogenesis" "chalcogen molecular entity" @@ -2721,7 +2687,6 @@ "PR" "Bolwig's organ primordium" "P1 BolOrg" - "Asn CenBr" "spiracles everted larva" "cryoplanet" "telluric planet" @@ -2765,7 +2730,7 @@ "has extra parts of" "having supernumerary physical parts" "boundary layer" - "larval integumentary system" + "embryonic/larval integumentary system" "larval SEZ" "antennal sensillum" "high female fertility" @@ -2781,11 +2746,11 @@ "blastoderm" "detection of light" "pre-blastoderm" - "L2" - "second instar larva" "placement" "relational spatial quality" "location" + "L2" + "second instar larva" "noble gas molecular entity" "pregnathal segment" "preoral segment" @@ -2805,7 +2770,6 @@ "water nitrogen atom amount" "pnictogen molecular entity" "snow porosity" - "organic cyclic compound metabolism" "molecule" "organogenesis" "development of an organ" diff --git a/src/ontology/reports/xrefs.tsv b/src/ontology/reports/xrefs.tsv index 6c2a5f9..e38d318 100644 --- a/src/ontology/reports/xrefs.tsv +++ b/src/ontology/reports/xrefs.tsv @@ -68,6 +68,7 @@ "http://sweetontology.net/reprSpaceGeometry/Surface" "EcoLexicon:surface" "Wikipedia:Solvent" + "UBERON:6005396" "UBERON:0007023" "UBERON:6001652" "Wikipedia:Photoperiodism" @@ -84,7 +85,6 @@ "UBERON:0003142" "Wikipedia:Immune_system" "http://sweetontology.net/phenCryo/Accumulation" - "VFB:FBbt_00001062" "UBERON:6001732" "EcoLexicon:environment" "VFB:FBbt_00002649" @@ -94,7 +94,6 @@ "VFB:FBbt_00047887" "UBERON:0000955" "VFB:FBbt_00005095" - "VFB:FBbt_00001067" "UBERON:6057001" "VFB:FBbt_00007145" "UBERON:6007145" @@ -120,6 +119,7 @@ "MetaCyc:CARBON-DIOXIDE" "Wikipedia:Carbon_dioxide" "KEGG:D00004" + "FBdv:00005331" "Wikipedia:Reproduction" "VFB:FBbt_00002639" "UBERON:6002639" @@ -188,7 +188,6 @@ "Wikipedia:Electron" "KEGG:C05359" "UBERON:0000483" - "CARO:0000066" "MetaCyc:WATER" "KEGG:D00001" "MolBase:1" @@ -202,15 +201,14 @@ "UBERON:0001007" "https://www.worldwildlife.org/biome-categories/terrestrial-ecoregions" - "VFB:FBbt_00110192" "snap:Quality" "UBERON:6040003" + "FBdv:00005321" "UBERON:6003005" "WebElements:Ar" "UBERON:6001729" "UBERON:0000924" "Wikipedia:Subatomic_particle" - "VFB:FBbt_00001066" "VFB:FBbt_00005805" "UBERON:6005805" "UBERON:0001001" @@ -240,16 +238,18 @@ "Wikipedia:Food_additive" "WebElements:N" "VFB:FBbt_00047888" + "FBdv:00000054" "UBERON:0010001" "Wikipedia:Mineral" "Wikipedia:Visual_perception" "KEGG:C00701" + "FBdv:00005317" "UBERON:0004734" "UBERON:6000158" + "UBERON:6001842" "UBERON:6003009" "UBERON:6001911" "VFB:FBbt_00001911" - "VFB:FBbt_00005662" "http://sweetontology.net/realmCryo/FrozenGround" "https://en.wikipedia.org/wiki/Air" @@ -305,6 +305,7 @@ "UBERON:0011216" "LTER:173" "UBERON:0000922" + "FBdv:00005289" "EcoLexicon:clay" "SWEETRealm:Clay" "Wikipedia:Morphogenesis" @@ -326,11 +327,13 @@ "LTER:809" "EcoLexicon:biome" "UBERON:6004983" + "FBdv:00005290" "Wikipedia:Biological_process" "OBO_REL:has_part" "UBERON:6000009" "UBERON:6003010" "UBERON:0005423" + "CARO:0000066" "LTER:408" "https://en.wikipedia.org/wiki/Permafrost" @@ -391,10 +394,11 @@ "VFB:FBbt_00110636" "UBERON:6110636" "https://ncit.nci.nih.gov/ncitbrowser/ConceptReport.jsp?dictionary=NCI_Thesaurus&code=C12913" + "FBdv:00005304" "Wikipedia:Organogenesis" - "VFB:FBbt_00052717" "UBERON:6005427" "UBERON:0015203" + "Wikipedia:Primary_metabolite" "Wikipedia:Physical_property" "VFB:FBbt_00005137" "VFB:FBbt_00001912" @@ -403,6 +407,7 @@ "larvalbrain_neuropil:515" "larvalbrain_neuropil:337" "LTER:341" + "FBdv:00005333" "UBERON:0000323" "Wikipedia:Macromolecule" "NLCD:31" diff --git a/src/patterns/definitions.owl b/src/patterns/definitions.owl index 7860796..8c91120 100644 --- a/src/patterns/definitions.owl +++ b/src/patterns/definitions.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2024-06-13") + +Annotation(owl:versionInfo "2024-08-08") Declaration(Class()) Declaration(Class())