format-version: 1.2
data-version: plana/releases/2019-02-21/plana.owl
synonymtypedef: human "synonym typically used in the context of human anatomy" NARROW
synonymtypedef: vertebrate "synonym typically used in the context of vertebrate anatomy" NARROW
default-namespace: Planarian_Anatomy
treat-xrefs-as-genus-differentia: CARO part_of NCBITaxon:79327; CL part_of NCBITaxon:79327
ontology: http://purl.obolibrary.org/obo
owl-axioms: Prefix(owl:=<http://www.w3.org/2002/07/owl#>)\nPrefix(rdf:=<http://www.w3.org/1999/02/22-rdf-syntax-ns#>)\nPrefix(xml:=<http://www.w3.org/XML/1998/namespace>)\nPrefix(xsd:=<http://www.w3.org/2001/XMLSchema#>)\nPrefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)\n\n\nOntology(\nDeclaration(Class(<http://purl.obolibrary.org/obo/GO_0008150>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/PLANA_0000021>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/PLANA_0000040>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/PLANA_0000112>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/PLANA_0000400>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/UBERON_0000000>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/UBERON_0000068>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/UBERON_0000092>))\nDeclaration(Class(<http://purl.obolibrary.org/obo/UBERON_0000104>))\nDeclaration(ObjectProperty(<http://purl.obolibrary.org/obo/BFO_0000050>))\nDeclaration(AnnotationProperty(<http://www.geneontology.org/formats/oboInOwl#id>))\n\n############################\n# Object Properties\n############################\n\n# Object Property: <http://purl.obolibrary.org/obo/BFO_0000050> (part of)\n\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BFO_0000050> \"\"^^xsd:string)\n\n\n\n############################\n# Classes\n############################\n\n# Class: <http://purl.obolibrary.org/obo/GO_0008150> (biological_process)\n\nSubClassOf(<http://purl.obolibrary.org/obo/GO_0008150> owl:Thing)\n\n# Class: <http://purl.obolibrary.org/obo/PLANA_0000021> (biotype)\n\nSubClassOf(<http://purl.obolibrary.org/obo/PLANA_0000021> owl:Thing)\n\n# Class: <http://purl.obolibrary.org/obo/PLANA_0000040> (Schmidtea mediterranea developmental stage)\n\nSubClassOf(<http://purl.obolibrary.org/obo/PLANA_0000040> owl:Thing)\n\n# Class: <http://purl.obolibrary.org/obo/PLANA_0000112> (Schmidtea mediterranea developmental term)\n\nSubClassOf(<http://purl.obolibrary.org/obo/PLANA_0000112> owl:Thing)\n\n# Class: <http://purl.obolibrary.org/obo/PLANA_0000400> (anatomical entity)\n\nSubClassOf(<http://purl.obolibrary.org/obo/PLANA_0000400> owl:Thing)\n\n# Class: <http://purl.obolibrary.org/obo/UBERON_0000000> (processual entity)\n\nSubClassOf(<http://purl.obolibrary.org/obo/UBERON_0000000> owl:Thing)\n\n\nEquivalentClasses(ObjectUnionOf(ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000068>) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000092>)) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000104>))\nDisjointClasses(ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000068>) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000092>))\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000096> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000097> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000098> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000099> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000100> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000102> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000105> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000106> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000107> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000108> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000110> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000111> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000113> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000120> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000121> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000122> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000123> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000124> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000125> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0000126> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001100> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001101> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001106> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001107> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001108> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001113> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001114> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0001115> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0005001> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015001> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015002> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015003> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015004> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015005> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015006> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015007> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015008> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015009> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015010> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015011> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015012> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015013> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015014> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015015> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015016> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015017> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015201> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_0015202> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/BSPO_1000000> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0001018> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002131> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002202> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002220> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002226> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002285> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002324> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002380> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002488> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002489> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002490> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002491> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002492> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002496> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002497> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002583> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0002593> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/RO_0003001> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/#_has_start_point> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/bspo#parallel_to> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/http://purl.obolibrary.org/obo#existence_starts_and_ends_during> \"\"^^xsd:string)\nAnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/http://purl.obolibrary.org/obo#subdivision_of> \"\"^^xsd:string)\n)
[Term]
id: BSPO:0000000
name: left side
def: "The side of an organism that is left of the sagittal plane." [BSPO:cjm]
synonym: "left" EXACT []
xref: BSPO:0000000
is_a: BSPO:0000054 ! anatomical side
relationship: BSPO:0000110 BSPO:0000007 ! left_of right side
[Term]
id: BSPO:0000005
name: anatomical surface
def: "A 2D surface of an anatomical structure that is the boundary between an anatomical structure and an anatomical substance, an anatomical space or the organism's environment. Examples include the surface of your skin, the surface of the lining of your gut; the surface of the endothelium of you aorta that is in contact with blood." []
comment: to be merged into CARO
synonym: "surface" EXACT []
xref: BSPO:0000005
xref: FMA:24137
is_a: PLANA:0000401 ! immaterial anatomical entity
[Term]
id: BSPO:0000006
name: anatomical margin
def: "Fiat anatomical region extending a short distance from the boundary of an object inwards." [BSPO:cjm]
synonym: "edge" EXACT []
synonym: "margin" EXACT []
xref: BSPO:0000006
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000007
name: right side
def: "The side of an organism that is right of the sagittal plane." [BSPO:cjm, BSPO:wd]
synonym: "right" EXACT []
xref: BSPO:0000007
is_a: BSPO:0000054 ! anatomical side
[Term]
id: BSPO:0000008
name: parasagittal plane
def: "Sagittal plane that divides a bilateral body into unequal left and right parts." [BSPO:mah]
comment: Image depicts a hemotoxylin and eosin stained sagittal section of an asexual adult animal. This slice does not run through the midline of the animal, as the photoreceptors are apparent. Scale bar: 500um
synonym: "parasagittal section" EXACT []
xref: BSPO:0000008
is_a: PLANA:0007503 ! sagittal plane
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/sagittalplane.png
created_by: Steph Nowotarski
[Term]
id: BSPO:0000009
name: midsagittal plane
def: "Sagittal plane that divides bilateral body into equal left and right parts." [BSPO:mah]
comment: only in bilaterally symmetrical organisms
synonym: "median plane" RELATED []
synonym: "median sagittal plane" EXACT [FMA:74563]
synonym: "midline plane" EXACT []
synonym: "midsagittal section" EXACT []
xref: BSPO:0000009
xref: FMA:74563
is_a: PLANA:0007503 ! sagittal plane
[Term]
id: BSPO:0000010
name: anatomical axis
def: "A straight line through space, intersecting an anatomical entity." [BSPO:cjm]
comment: Axis directions are defined in terms of axes.
xref: BSPO:0000010
xref: http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG
is_a: PLANA:0000489 ! anatomical line
[Term]
id: BSPO:0000012
name: deep-superficial axis
def: "An axis that extends from an internal position to a more external position in the body or body part." [BSPO:PM]
comment: Muscles are frequently categorized as 'deep', 'intermediate', and 'superficial'.
xref: BSPO:0000012
is_a: BSPO:0000010 ! anatomical axis
[Term]
id: BSPO:0000019
name: horizontal plane
def: "Anatomical plane that divides bilateral body into dorsal and ventral parts." [BSPO:mah]
synonym: "coronal section" RELATED []
synonym: "frontal plane" EXACT []
synonym: "frontal section" RELATED []
synonym: "horizontal anatomical plane" EXACT [FMA:52810]
synonym: "horizontal section" EXACT []
xref: BSPO:0000019
xref: FMA:52810
is_a: PLANA:0000490 ! anatomical plane
[Term]
id: BSPO:0000021
name: deep-superficial gradient
def: "Anatomical gradient that is distributed along the deep-superficial axis." [BSPO:wd]
xref: BSPO:0000021
is_a: BSPO:0000051 ! anatomical gradient
intersection_of: BSPO:0000051 ! anatomical gradient
intersection_of: BSPO:0015002 BSPO:0000012 ! follows_axis deep-superficial axis
relationship: BSPO:0015002 BSPO:0000012 ! follows_axis deep-superficial axis
[Term]
id: BSPO:0000023
name: apical-basal gradient
def: "Anatomical gradient that is distributed along the apical-basal axis." [BSPO:wd]
xref: BSPO:0000023
is_a: BSPO:0000051 ! anatomical gradient
[Term]
id: BSPO:0000024
name: proximal-distal gradient
def: "Anatomical gradient that is distributed along the proximal-distal axis." [BSPO:wd]
xref: BSPO:0000024
is_a: BSPO:0000051 ! anatomical gradient
[Term]
id: BSPO:0000028
name: postero-lateral region
def: "Anatomical region that overlaps the posterior and lateral regions of the body or body part." [BSPO:wd]
synonym: "posterolateral region" EXACT []
xref: BSPO:0000028
is_a: BSPO:0000072 ! posterior region
is_a: BSPO:0000082 ! lateral region
created_by: Melissa Haendel
creation_date: 2009-06-15T01:06:01Z
[Term]
id: BSPO:0000029
name: antero-lateral region
def: "Anatomical region that overlaps the anterior and lateral regions of a body or body part." [BSPO:wd]
synonym: "anterolateral region" EXACT []
xref: BSPO:0000029
is_a: BSPO:0000071 ! anterior region
is_a: BSPO:0000082 ! lateral region
created_by: Melissa Haendel
creation_date: 2009-06-15T01:07:18Z
[Term]
id: BSPO:0000033
name: deep region
def: "Anatomical region located deep within an organism or structure." [BSPO:wd]
xref: BSPO:0000033
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000034
name: superficial region
def: "Anatomical region superficially located on the body or body part." [BSPO:wd]
xref: BSPO:0000034
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000036
name: anterior-most region
synonym: "anterior-most" EXACT []
synonym: "anteriormost" EXACT []
xref: BSPO:0000036
is_a: BSPO:0000071 ! anterior region
created_by: Melissa Haendel
creation_date: 2009-06-16T08:49:03Z
[Term]
id: BSPO:0000037
name: posterior-most region
synonym: "posterior-most" EXACT []
synonym: "posteriormost" EXACT []
xref: BSPO:0000037
is_a: BSPO:0000072 ! posterior region
created_by: Melissa Haendel
creation_date: 2009-06-16T08:49:50Z
[Term]
id: BSPO:0000038
name: dorsal-most region
synonym: "dorsal-most" EXACT []
synonym: "dorsalmost" EXACT []
xref: BSPO:0000038
is_a: BSPO:0000079 ! dorsal region
created_by: Melissa Haendel
creation_date: 2009-06-16T08:50:26Z
[Term]
id: BSPO:0000039
name: ventral-most region
synonym: "ventral-most" EXACT []
synonym: "ventralmost" EXACT []
xref: BSPO:0000039
is_a: BSPO:0000084 ! ventral region
created_by: Melissa Haendel
creation_date: 2009-06-16T08:51:07Z
[Term]
id: BSPO:0000041
name: deep/superficial compartment boundary
xref: BSPO:0000041
is_a: BSPO:0000092 ! anatomical compartment boundary
intersection_of: BSPO:0000092 ! anatomical compartment boundary
intersection_of: BSPO:0015003 BSPO:0000012 ! has_axis deep-superficial axis
relationship: BSPO:0015003 BSPO:0000012 ! has_axis deep-superficial axis
[Term]
id: BSPO:0000042
name: antero-medial margin
def: "Anatomical margin that is located on the antero-medial region of the body or body part." [BSPO:wd]
synonym: "anteromedial margin" EXACT []
xref: BSPO:0000042
is_a: BSPO:0000671 ! anterior margin
is_a: BSPO:0000683 ! medial margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000055 ! overlaps anterior side
intersection_of: RO:0002131 BSPO:0000067 ! overlaps medial side
created_by: Melissa Haendel
creation_date: 2009-09-10T08:49:57Z
[Term]
id: BSPO:0000043
name: apical/basal compartment boundary
xref: BSPO:0000043
is_a: BSPO:0000092 ! anatomical compartment boundary
[Term]
id: BSPO:0000044
name: proximal/distal compartment boundary
xref: BSPO:0000044
is_a: BSPO:0000092 ! anatomical compartment boundary
[Term]
id: BSPO:0000045
name: antero-lateral margin
def: "Anatomical margin that is located on the antero-lateral region of the body or body part." [BSPO:wd]
synonym: "anterolateral margin" EXACT []
xref: BSPO:0000045
is_a: BSPO:0000029 ! antero-lateral region
is_a: BSPO:0000671 ! anterior margin
is_a: BSPO:0000682 ! lateral margin
created_by: Melissa Haendel
creation_date: 2009-09-10T08:50:37Z
[Term]
id: BSPO:0000046
name: postero-medial margin
def: "Anatomical margin that is located on the postero-medial region of the body or body part." [BSPO:wd]
synonym: "posteromedial margin" EXACT []
xref: BSPO:0000046
is_a: BSPO:0000672 ! posterior margin
is_a: BSPO:0000683 ! medial margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000056 ! overlaps posterior side
intersection_of: RO:0002131 BSPO:0000067 ! overlaps medial side
created_by: Melissa Haendel
creation_date: 2009-09-10T08:51:07Z
[Term]
id: BSPO:0000047
name: postero-lateral margin
def: "Anatomical margin that is located on the postero-lateral region of the body or body part." [BSPO:wd]
synonym: "posterolateral margin" EXACT []
xref: BSPO:0000047
is_a: BSPO:0000028 ! postero-lateral region
is_a: BSPO:0000672 ! posterior margin
is_a: BSPO:0000682 ! lateral margin
created_by: Melissa Haendel
creation_date: 2009-09-10T08:51:42Z
[Term]
id: BSPO:0000048
name: dorso-medial margin
def: "Anatomical margin that is located on the dorso-medial region of the body or body part." [BSPO:wd]
synonym: "dorso-medial margin" EXACT []
xref: BSPO:0000048
is_a: BSPO:0000679 ! dorsal margin
is_a: BSPO:0000683 ! medial margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000063 ! overlaps dorsal side
intersection_of: RO:0002131 BSPO:0000067 ! overlaps medial side
created_by: Melissa Haendel
creation_date: 2009-09-10T08:52:04Z
[Term]
id: BSPO:0000049
name: ventro-medial margin
def: "Anatomical margin that is located on the ventro-medial region of the body or body part." [BSPO:wd]
synonym: "ventromedial margin" EXACT []
xref: BSPO:0000049
is_a: BSPO:0000683 ! medial margin
is_a: BSPO:0000684 ! ventral margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000067 ! overlaps medial side
intersection_of: RO:0002131 BSPO:0000068 ! overlaps ventral side
created_by: Melissa Haendel
creation_date: 2009-09-10T08:52:48Z
[Term]
id: BSPO:0000051
name: anatomical gradient
def: "Material anatomical entity defined by change in the value of some quantity per unit of distance across some spatial axis." [BSPO:cjm]
xref: BSPO:0000051
xref: FBql:00005254
is_a: PLANA:0000424 ! material anatomical entity
[Term]
id: BSPO:0000052
name: anterior-posterior gradient
def: "Anatomical gradient that is distributed along the anterior-posterior axis." [BSPO:wd]
xref: BSPO:0000052
xref: FBcv:0000142
xref: FBql:00005256
is_a: BSPO:0000051 ! anatomical gradient
[Term]
id: BSPO:0000053
name: dorsal-ventral gradient
def: "Anatomical gradient that is distributed along the dorsal-ventral axis." [BSPO:wd]
xref: BSPO:0000053
xref: FBcv:0000143
xref: FBql:00005255
is_a: BSPO:0000051 ! anatomical gradient
[Term]
id: BSPO:0000054
name: anatomical side
def: "An anatomical region bounded by a plane perpendicular to an axis through the middle." [BSPO:cjm]
xref: BSPO:0000054
xref: FBql:00005841
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000055
name: anterior side
def: "An anatomical region that is the entire part of an anatomical structure anterior to a transverse plane and bounded on one side by the same transverse plane." [BSPO:RW]
synonym: "anterior" EXACT []
synonym: "rostral" EXACT []
xref: BSPO:0000055
xref: FBcv:0000053
xref: FBql:00005848
is_a: BSPO:0000054 ! anatomical side
relationship: BSPO:0000096 BSPO:0000056 ! anterior_to posterior side
relationship: BSPO:0000113 BSPO:0000056 ! opposite_to posterior side
[Term]
id: BSPO:0000056
name: posterior side
def: "An anatomical region that is the entire part of an anatomical structure posterior to a transverse plane and bounded on one side by the same transverse plane." [BSPO:RW, BSPO:wd]
synonym: "caudal" NARROW vertebrate []
synonym: "posterior" EXACT []
xref: BSPO:0000056
xref: FBcv:0000065
xref: FBql:00005849
is_a: BSPO:0000054 ! anatomical side
relationship: BSPO:0000099 BSPO:0000055 ! posterior_to anterior side
[Term]
id: BSPO:0000057
name: apical side
def: "Anatomical side that is located on the apical end of an organism or structure." [BSPO:wd]
synonym: "apical" EXACT []
xref: BSPO:0000057
xref: FBcv:0000054
xref: FBql:00005854
is_a: BSPO:0000054 ! anatomical side
relationship: BSPO:0000113 BSPO:0000058 ! opposite_to basal side
[Term]
id: BSPO:0000058
name: basal side
def: "Anatomical side that is located on the basal end of an organism or structure." [BSPO:wd]
comment: The part of the organism attached to a substrate. Axis of symmetry.
synonym: "basal" EXACT []
xref: BSPO:0000058
xref: FBcv:0000055
xref: FBql:00005855
is_a: BSPO:0000054 ! anatomical side
[Term]
id: BSPO:0000063
name: dorsal side
def: "An anatomical region that is the entire part of an anatomical structure dorsal to a horizontal plane and bounded on one side by the same transverse plane." [BSPO:wd]
synonym: "dorsal" EXACT []
xref: BSPO:0000063
xref: FBcv:0000059
xref: FBql:00005842
is_a: BSPO:0000054 ! anatomical side
relationship: BSPO:0000113 BSPO:0000068 ! opposite_to ventral side
[Term]
id: BSPO:0000067
name: medial side
comment: a point in the centre of the organism (where the left-right axis intersects the midsagittal plane)
synonym: "medial" EXACT []
xref: BSPO:0000067
xref: FBcv:0000064
xref: FBql:00005847
is_a: BSPO:0000054 ! anatomical side
[Term]
id: BSPO:0000068
name: ventral side
def: "An anatomical region that is the entire part of an anatomical structure ventral to a horizontal plane and bounded on one side by the same horizontal plane." [BSPO:RW, BSPO:wd]
synonym: "ventral" EXACT []
xref: BSPO:0000068
xref: FBcv:0000070
xref: FBql:00005843
is_a: BSPO:0000054 ! anatomical side
[Term]
id: BSPO:0000070
name: anatomical region
def: "A 3D region in space without well-defined compartmental boundaries; for example, the dorsal region of an ectoderm." [BSPO:cjm]
comment: to be merged into CARO
xref: BSPO:0000070
xref: FBql:00005841
is_a: PLANA:0000417 ! definitive organism subdivision
[Term]
id: BSPO:0000071
name: anterior region
def: "Anatomical region anteriorly located on the body or body part." [BSPO:wd]
xref: BSPO:0000071
xref: FBql:00005848
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000055 ! overlaps anterior side
relationship: RO:0002131 BSPO:0000055 ! overlaps anterior side
[Term]
id: BSPO:0000072
name: posterior region
def: "Anatomical region posteriorly located on the body or body part." [BSPO:wd]
xref: BSPO:0000072
xref: FBql:00005849
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000056 ! overlaps posterior side
relationship: RO:0002131 BSPO:0000056 ! overlaps posterior side
[Term]
id: BSPO:0000073
name: apical region
def: "Anatomical region located on the apical end on the body or body part." [BSPO:wd]
xref: BSPO:0000073
xref: FBql:00005854
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000057 ! overlaps apical side
relationship: RO:0002131 BSPO:0000057 ! overlaps apical side
[Term]
id: BSPO:0000074
name: basal region
def: "Anatomical region located basally on the body or body part." [BSPO:wd]
xref: BSPO:0000074
xref: FBql:00005855
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000058 ! overlaps basal side
relationship: RO:0002131 BSPO:0000058 ! overlaps basal side
[Term]
id: BSPO:0000075
name: central region
def: "Anatomical region centrally located on the body or body part." [BSPO:wd]
xref: BSPO:0000075
xref: FBql:00015851
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000076
name: contralateral region
comment: inherited from flybase cv. not clear how this would be used
xref: BSPO:0000076
xref: FBql:00005851
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000077
name: proximal region
def: "Anatomical region proximally located on the body or body part." [BSPO:wd]
xref: BSPO:0000077
xref: FBql:00005852
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000078
name: distal region
def: "Anatomical region distally located on the body or body part." [BSPO:wd]
xref: BSPO:0000078
xref: FBql:00005853
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000079
name: dorsal region
def: "Anatomical region dorsally located on the body or body part." [BSPO:wd]
xref: BSPO:0000079
xref: FBql:00005842
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000063 ! overlaps dorsal side
relationship: RO:0002131 BSPO:0000063 ! overlaps dorsal side
[Term]
id: BSPO:0000080
name: dorso-lateral region
def: "Anatomical region that overlaps the dorsal and lateral regions of a body or body part." [BSPO:wd]
synonym: "dorsolateral region" EXACT []
xref: BSPO:0000080
xref: FBql:00005845
is_a: BSPO:0000079 ! dorsal region
is_a: BSPO:0000082 ! lateral region
[Term]
id: BSPO:0000081
name: ipsilateral region
xref: BSPO:0000081
xref: FBql:00005850
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000082
name: lateral region
def: "Anatomical region laterally located on the body or body part." [BSPO:wd]
xref: BSPO:0000082
xref: FBql:00005844
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000083
name: medial region
def: "Anatomical region medially located on the body or body part." [BSPO:wd]
xref: BSPO:0000083
xref: FBql:00005847
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000067 ! overlaps medial side
relationship: RO:0002131 BSPO:0000067 ! overlaps medial side
[Term]
id: BSPO:0000084
name: ventral region
def: "Anatomical region ventrally located on the body or body part." [BSPO:wd]
xref: BSPO:0000084
xref: FBql:00005843
is_a: BSPO:0000070 ! anatomical region
intersection_of: BSPO:0000070 ! anatomical region
intersection_of: RO:0002131 BSPO:0000068 ! overlaps ventral side
relationship: RO:0002131 BSPO:0000068 ! overlaps ventral side
[Term]
id: BSPO:0000085
name: ventro-lateral region
def: "Anatomical region that overlaps the ventral and lateral regions of a body or body part." [BSPO:wd]
comment: This is an example of a composition of two axis positions.
synonym: "ventrolateral region" EXACT []
xref: BSPO:0000085
xref: FBql:00005846
is_a: BSPO:0000082 ! lateral region
is_a: BSPO:0000084 ! ventral region
[Term]
id: BSPO:0000086
name: anatomical compartment
def: "A broad, three dimensional body region, defined in relation to the anteroposterior, dorsoventral or mediolateral axis." []
comment: to be merged into CARO
xref: BSPO:0000086
xref: FBql:00005873
xref: FMA:9647
is_a: PLANA:0000417 ! definitive organism subdivision
[Term]
id: BSPO:0000092
name: anatomical compartment boundary
comment: to be merged into CARO
xref: BSPO:0000092
xref: FBql:00005881
is_a: PLANA:0000496 ! anatomical boundary
[Term]
id: BSPO:0000093
name: anterior/posterior compartment boundary
xref: BSPO:0000093
xref: FBcv:0000033
xref: FBql:00005880
is_a: BSPO:0000092 ! anatomical compartment boundary
[Term]
id: BSPO:0000094
name: dorsal/ventral compartment boundary
xref: BSPO:0000094
xref: FBcv:0000034
xref: FBql:00005879
is_a: BSPO:0000092 ! anatomical compartment boundary
[Term]
id: BSPO:0000127
name: peripheral region
def: "Anatomical region peripherally located on the body or body part." [BSPO:wd]
xref: BSPO:0000127
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000128
name: axial region
xref: BSPO:0000128
is_a: BSPO:0000070 ! anatomical region
[Term]
id: BSPO:0000196
name: medial-external axis
def: "An anatomical axis that extends from the center of the body outwards or externally." [BSPO:curators]
comment: The medial-external axis could apply to a sphere-shaped body.
synonym: "proximal-distal axis" RELATED []
xref: BSPO:0000196
is_a: BSPO:0000010 ! anatomical axis
created_by: wasila.dahdul
creation_date: 2013-07-02T11:21:42Z
[Term]
id: BSPO:0000197
name: medial-radial axis
def: "An anatomical axis that is perpendicular to an apical/basal axis or proximal/distal axis and extends from the center of an axis (shoot axis or root in the case of plants) to any point on the exterior of the axis." [BSPO:curators]
comment: In plants, lateral growth (http://purl.obolibrary.org/obo/GO_0080190) run is along the medial/radial axis (from medial to radial) [RW]. Also applies to radially symmetrical animals such as sea urchins, cnidarians [PM] or applies to more-or-less cylindrical body parts in animals, like limbs.
synonym: "M-R axis" EXACT []
synonym: "MR axis" EXACT []
xref: BSPO:0000197
is_a: BSPO:0000196 ! medial-external axis
created_by: wasila.dahdul
creation_date: 2013-07-02T11:23:31Z
[Term]
id: BSPO:0000201
name: tangential plane
def: "Anatomical plane that is perpendicular to a radial plane." [BSPO:wd]
comment: Need to add logical definitions.
xref: BSPO:0000201
is_a: PLANA:0000490 ! anatomical plane
created_by: wasila.dahdul
creation_date: 2014-01-22T15:34:31Z
[Term]
id: BSPO:0000202
name: radial plane
def: "Anatomical plane that follows the two dimensions specified by an apical-basal axis relative to direction of growth and a medial-lateral axis." [BSPO:wd]
comment: Need to add logical definitions.
xref: BSPO:0000202
is_a: PLANA:0000490 ! anatomical plane
created_by: wasila.dahdul
creation_date: 2014-01-22T15:34:02Z
[Term]
id: BSPO:0000371
name: anterior surface
def: "Anatomical surface that is located on the anterior side of the body or body part." [BSPO:wd]
xref: BSPO:0000371
xref: FBql:00005848
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000055 ! surface_of anterior side
relationship: BSPO:0015008 BSPO:0000055 ! surface_of anterior side
[Term]
id: BSPO:0000372
name: posterior surface
def: "Anatomical surface that is located on the posterior side of the body or body part." [BSPO:wd]
xref: BSPO:0000372
xref: FBql:00005849
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000056 ! surface_of posterior side
relationship: BSPO:0015008 BSPO:0000056 ! surface_of posterior side
[Term]
id: BSPO:0000373
name: apical surface
def: "Anatomical surface that is located on the apical side of the body or body part." [BSPO:wd]
xref: BSPO:0000373
xref: FBql:00005854
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000057 ! surface_of apical side
relationship: BSPO:0015008 BSPO:0000057 ! surface_of apical side
[Term]
id: BSPO:0000374
name: basal surface
def: "Anatomical surface that is located on the basal side of the body or body part." [BSPO:wd]
xref: BSPO:0000374
xref: FBql:00005855
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000058 ! surface_of basal side
relationship: BSPO:0015008 BSPO:0000058 ! surface_of basal side
[Term]
id: BSPO:0000376
name: contralateral surface
def: "Anatomical surface on the side opposite to another structure" []
xref: BSPO:0000376
xref: FBql:00005851
is_a: BSPO:0000005 ! anatomical surface
[Term]
id: BSPO:0000377
name: proximal surface
def: "Anatomical surface that is located on the proximal side of the body or body part." [BSPO:wd]
xref: BSPO:0000377
xref: FBql:00005852
is_a: BSPO:0000005 ! anatomical surface
[Term]
id: BSPO:0000378
name: distal surface
def: "Anatomical surface that is located on the distal side of the body or body part." [BSPO:wd]
xref: BSPO:0000378
xref: FBql:00005853
is_a: BSPO:0000005 ! anatomical surface
[Term]
id: BSPO:0000379
name: dorsal surface
def: "Anatomical surface that located on the dorsal side of the body or body part." [BSPO:wd]
xref: BSPO:0000379
xref: FBql:00005842
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000063 ! surface_of dorsal side
relationship: BSPO:0015008 BSPO:0000063 ! surface_of dorsal side
[Term]
id: BSPO:0000381
name: ipsilateral surface
def: "Anatomical surface that is located on the same side of an organism or structure." [BSPO:wd]
xref: BSPO:0000381
xref: FBql:00005850
is_a: BSPO:0000005 ! anatomical surface
[Term]
id: BSPO:0000382
name: lateral surface
def: "Anatomical surface that located on the lateral side of the body or body part." [BSPO:wd]
xref: BSPO:0000382
xref: FBql:00005844
is_a: BSPO:0000005 ! anatomical surface
[Term]
id: BSPO:0000383
name: medial surface
def: "Anatomical surface that located on the medial side of the body or body part." [BSPO:wd]
xref: BSPO:0000383
xref: FBql:00005847
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000067 ! surface_of medial side
relationship: BSPO:0015008 BSPO:0000067 ! surface_of medial side
[Term]
id: BSPO:0000384
name: ventral surface
def: "Anatomical surface that is located on the ventral side of the body or body part." [BSPO:wd]
xref: BSPO:0000384
xref: FBql:00005843
is_a: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0000005 ! anatomical surface
intersection_of: BSPO:0015008 BSPO:0000068 ! surface_of ventral side
relationship: BSPO:0015008 BSPO:0000068 ! surface_of ventral side
[Term]
id: BSPO:0000671
name: anterior margin
def: "Anatomical margin that is located on the anterior side of a body or body part." [BSPO:wd]
xref: BSPO:0000671
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000071 ! anterior region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000055 ! overlaps anterior side
[Term]
id: BSPO:0000672
name: posterior margin
def: "Anatomical margin that is located on the posterior side of the body or body part." [BSPO:wd]
xref: BSPO:0000672
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000072 ! posterior region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000056 ! overlaps posterior side
[Term]
id: BSPO:0000673
name: apical margin
def: "Anatomical margin that is located on the apical side of the body or body part." [BSPO:wd]
xref: BSPO:0000673
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000073 ! apical region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000057 ! overlaps apical side
[Term]
id: BSPO:0000674
name: basal margin
def: "Anatomical margin that is located on the basal side of the body or body part." [BSPO:wd]
xref: BSPO:0000674
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000074 ! basal region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000058 ! overlaps basal side
[Term]
id: BSPO:0000677
name: proximal margin
def: "Anatomical margin that is located on the proximal region of the body or body part." [BSPO:wd]
xref: BSPO:0000677
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000077 ! proximal region
[Term]
id: BSPO:0000678
name: distal margin
def: "Anatomical margin that is located on the distal side of the body or body part." [BSPO:wd]
xref: BSPO:0000678
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000078 ! distal region
[Term]
id: BSPO:0000679
name: dorsal margin
def: "Anatomical margin that is located on the dorsal side of body or body part." [BSPO:wd]
xref: BSPO:0000679
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000079 ! dorsal region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000063 ! overlaps dorsal side
[Term]
id: BSPO:0000680
name: dorso-lateral margin
def: "Anatomical margin that is located on the dorso-lateral region of the body or body part." [BSPO:wd]
synonym: "dorsolateral margin" EXACT []
xref: BSPO:0000680
is_a: BSPO:0000080 ! dorso-lateral region
is_a: BSPO:0000679 ! dorsal margin
is_a: BSPO:0000682 ! lateral margin
[Term]
id: BSPO:0000682
name: lateral margin
def: "Anatomical margin that is located on the lateral side of the body or body part." [BSPO:wd]
xref: BSPO:0000682
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000082 ! lateral region
[Term]
id: BSPO:0000683
name: medial margin
def: "Anatomical margin that is located on the medial side of the body or body part." [BSPO:wd]
xref: BSPO:0000683
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000083 ! medial region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000067 ! overlaps medial side
[Term]
id: BSPO:0000684
name: ventral margin
def: "Anatomical margin that is located on the ventral side of the body or body part." [BSPO:wd]
xref: BSPO:0000684
is_a: BSPO:0000006 ! anatomical margin
is_a: BSPO:0000084 ! ventral region
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000068 ! overlaps ventral side
[Term]
id: BSPO:0000685
name: ventro-lateral margin
def: "Anatomical margin that is located on the ventro-lateral region of the body or body part." [BSPO:wd]
comment: This is an example of a composition of two axis positions
synonym: "ventrolateral margin" EXACT []
xref: BSPO:0000685
is_a: BSPO:0000085 ! ventro-lateral region
is_a: BSPO:0000682 ! lateral margin
is_a: BSPO:0000684 ! ventral margin
[Term]
id: BSPO:0000686
name: antero-dorsal margin
def: "Anatomical margin that is located on the antero-dorso region of the body or body part." [BSPO:wd]
synonym: "anterodorsal margin" EXACT []
xref: BSPO:0000686
is_a: BSPO:0000671 ! anterior margin
is_a: BSPO:0000679 ! dorsal margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000055 ! overlaps anterior side
intersection_of: RO:0002131 BSPO:0000063 ! overlaps dorsal side
[Term]
id: BSPO:0000687
name: postero-dorsal margin
def: "Anatomical margin that is located on the postero-dorsal region of the body or body part." [BSPO:wd]
synonym: "posterodorsal margin" EXACT []
xref: BSPO:0000687
is_a: BSPO:0000672 ! posterior margin
is_a: BSPO:0000679 ! dorsal margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000056 ! overlaps posterior side
intersection_of: RO:0002131 BSPO:0000063 ! overlaps dorsal side
[Term]
id: BSPO:0000688
name: antero-ventral margin
def: "Anatomical margin that is located on the antero-ventral region of the body or body part." [BSPO:wd]
synonym: "anteroventral margin" EXACT []
xref: BSPO:0000688
is_a: BSPO:0000671 ! anterior margin
is_a: BSPO:0000684 ! ventral margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000055 ! overlaps anterior side
intersection_of: RO:0002131 BSPO:0000068 ! overlaps ventral side
[Term]
id: BSPO:0000689
name: postero-ventral margin
def: "Anatomical margin that is located on the postero-ventral region of the body or body part." [BSPO:wd]
synonym: "posteroventral margin" EXACT []
xref: BSPO:0000689
is_a: BSPO:0000672 ! posterior margin
is_a: BSPO:0000684 ! ventral margin
intersection_of: BSPO:0000006 ! anatomical margin
intersection_of: RO:0002131 BSPO:0000056 ! overlaps posterior side
intersection_of: RO:0002131 BSPO:0000068 ! overlaps ventral side
[Term]
id: GO:0000003
name: reproduction
namespace: biological_process
alt_id: GO:0019952
alt_id: GO:0050876
def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732]
subset: goslim_agr
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_plant
synonym: "reproductive physiological process" EXACT []
xref: Wikipedia:Reproduction
is_a: GO:0008150 ! biological_process
[Term]
id: GO:0007275
name: multicellular organism development
namespace: biological_process
def: "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)." [GOC:dph, GOC:ems, GOC:isa_complete, GOC:tb]
comment: Note that this term was 'developmental process'.
subset: goslim_chembl
subset: goslim_plant
is_a: GO:0032501 ! multicellular organismal process
is_a: GO:0048856 ! anatomical structure development
[Term]
id: GO:0007338
name: single fertilization
namespace: biological_process
def: "The union of male and female gametes to form a zygote." [GOC:ems, GOC:mtg_sensu]
synonym: "zygote biosynthesis" RELATED []
synonym: "zygote formation" RELATED []
is_a: GO:0009566 ! fertilization
[Term]
id: GO:0008150
name: biological_process
namespace: biological_process
alt_id: GO:0000004
alt_id: GO:0007582
alt_id: GO:0044699
def: "A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt]
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code "no data" (ND), is used to indicate this.
subset: goslim_aspergillus
subset: goslim_candida
subset: goslim_chembl
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_pombe
subset: goslim_yeast
synonym: "biological process" EXACT []
synonym: "physiological process" EXACT []
synonym: "single organism process" RELATED []
synonym: "single-organism process" RELATED []
xref: Wikipedia:Biological_process
created_by: janelomax
creation_date: 2012-09-19T15:05:24Z
[Term]
id: GO:0009566
name: fertilization
namespace: biological_process
def: "The union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:tb, ISBN:0198506732]
synonym: "syngamy" EXACT []
xref: Wikipedia:Fertilisation
is_a: GO:0022414 ! reproductive process
relationship: BFO:0000050 GO:0019953 ! part of sexual reproduction
[Term]
id: GO:0009653
name: anatomical structure morphogenesis
namespace: biological_process
def: "The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form." [GOC:go_curators, ISBN:0521436125]
subset: goslim_plant
synonym: "anatomical structure organization" EXACT []
synonym: "embryogenesis and morphogenesis" BROAD []
synonym: "morphogenesis" EXACT []
xref: Wikipedia:Morphogenesis
is_a: GO:0032502 ! developmental process
relationship: BFO:0000050 GO:0048856 ! part of anatomical structure development
[Term]
id: GO:0009790
name: embryo development
namespace: biological_process
alt_id: GO:0009795
def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu]
subset: gocheck_do_not_manually_annotate
subset: goslim_chembl
subset: goslim_generic
subset: goslim_plant
synonym: "embryogenesis" EXACT []
synonym: "embryogenesis and morphogenesis" BROAD []
synonym: "embryonal development" EXACT []
xref: Wikipedia:Embryogenesis
is_a: GO:0007275 ! multicellular organism development
[Term]
id: GO:0009888
name: tissue development
namespace: biological_process
def: "The process whose specific outcome is the progression of a tissue over time, from its formation to the mature structure." [ISBN:0471245208]
synonym: "histogenesis" EXACT []
synonym: "histogenesis and organogenesis" BROAD []
xref: Wikipedia:Histogenesis
is_a: GO:0048856 ! anatomical structure development
[Term]
id: GO:0019953
name: sexual reproduction
namespace: biological_process
def: "A reproduction process that creates a new organism by combining the genetic material of two gametes, which may come from two organisms or from a single organism, in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. It occurs both in eukaryotes and prokaryotes: in multicellular eukaryotic organisms, an individual is created anew; in prokaryotes, the initial cell has additional or transformed genetic material. In a process called genetic recombination, genetic material (DNA) originating from two gametes join up so that homologous sequences are aligned with each other, and this is followed by exchange of genetic information. After the new recombinant chromosome is formed, it is passed on to progeny." [GOC:jl, GOC:kmv, GOC:krc, GOC:tb, http://en.wikipedia.org/wiki/Sexual_reproduction, ISBN:0387520546]
comment: Sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times.
xref: Wikipedia:Sexual_reproduction
is_a: GO:0000003 ! reproduction
is_a: GO:0044703 ! multi-organism reproductive process
[Term]
id: GO:0022414
name: reproductive process
namespace: biological_process
alt_id: GO:0044702
def: "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." [GOC:dph, GOC:isa_complete]
synonym: "single organism reproductive process" RELATED []
is_a: GO:0008150 ! biological_process
intersection_of: GO:0008150 ! biological_process
intersection_of: BFO:0000050 GO:0000003 ! part of reproduction
relationship: BFO:0000050 GO:0000003 ! part of reproduction
created_by: janelomax
creation_date: 2012-09-19T15:56:06Z
[Term]
id: GO:0032501
name: multicellular organismal process
namespace: biological_process
alt_id: GO:0044707
alt_id: GO:0050874
def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb]
subset: goslim_pir
synonym: "organismal physiological process" EXACT []
synonym: "single-multicellular organism process" RELATED []
is_a: GO:0008150 ! biological_process
created_by: janelomax
creation_date: 2012-09-19T16:07:47Z
[Term]
id: GO:0032502
name: developmental process
namespace: biological_process
alt_id: GO:0044767
def: "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." [GOC:isa_complete]
subset: goslim_agr
subset: goslim_aspergillus
subset: goslim_flybase_ribbon
subset: goslim_pir
synonym: "development" NARROW []
synonym: "single-organism developmental process" RELATED []
is_a: GO:0008150 ! biological_process
created_by: janelomax
creation_date: 2012-12-19T12:21:31Z
[Term]
id: GO:0032504
name: multicellular organism reproduction
namespace: biological_process
def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid]
is_a: GO:0000003 ! reproduction
is_a: GO:0032501 ! multicellular organismal process
[Term]
id: GO:0043473
name: pigmentation
namespace: biological_process
def: "The accumulation of pigment in an organism, tissue or cell, either by increased deposition or by increased number of cells." [GOC:jl]
subset: goslim_chembl
subset: goslim_generic
subset: goslim_pir
is_a: GO:0008150 ! biological_process
[Term]
id: GO:0044703
name: multi-organism reproductive process
namespace: biological_process
def: "A biological process that directly contributes to the process of producing new individuals, involving another organism." [GOC:jl]
is_a: GO:0022414 ! reproductive process
is_a: GO:0051704 ! multi-organism process
created_by: janelomax
creation_date: 2012-09-19T15:56:30Z
[Term]
id: GO:0048609
name: multicellular organismal reproductive process
namespace: biological_process
def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb]
synonym: "organismal reproductive process" BROAD [GOC:curators]
synonym: "reproductive process in a multicellular organism" EXACT [GOC:curators]
is_a: GO:0022414 ! reproductive process
relationship: BFO:0000050 GO:0032504 ! part of multicellular organism reproduction
[Term]
id: GO:0048856
name: anatomical structure development
namespace: biological_process
def: "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GO_REF:0000021, GOC:mtg_15jun06]
comment: This term was added by GO_REF:0000021.
subset: goslim_chembl
subset: goslim_generic
synonym: "development of an anatomical structure" EXACT []
is_a: GO:0032502 ! developmental process
[Term]
id: GO:0051704
name: multi-organism process
namespace: biological_process
alt_id: GO:0051706
def: "A biological process which involves another organism of the same or different species." [GOC:jl]
subset: goslim_pir
synonym: "interaction between organisms" EXACT []
synonym: "physiological interaction between organisms" EXACT []
synonym: "physiological interaction with other organism" EXACT []
is_a: GO:0008150 ! biological_process
[Term]
id: PLANA:0000001
name: Stage 1
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D0-D2. Zygote and dispersed blastomere cleavage in a yolk syncytium. Days 0-2 post-egg capsule deposition at 20˚C." [PMID:28072387]
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000001 xsd:string
[Term]
id: PLANA:0000002
name: Stage 2
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D2-D3. Sphere formation. A fraction of the blastomeres differentiate into temporary embryonic tissues that provide form and function to the embryo. Undifferentiated blastomeres remain in the embryonic wall. Days 2-3 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 2 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/Stage2.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000002 xsd:string
[Term]
id: PLANA:0000003
name: Stage 3
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D2-D4. Dispersed blastomere cleavage in the embryonic wall of nascent spheres. Yolk ingestion into the gut cavity. Days 2-4 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 3 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/Stage3.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000003 xsd:string
[Term]
id: PLANA:0000004
name: Stage 4
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D3-D5. Dispersed blastomere cleavage in the embryonic wall. Yolk ingestion into the gut cavity. Early embryonic gut formation. Days 3-5 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 4 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/stage4.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000004 xsd:string
[Term]
id: PLANA:0000005
name: Stage 5
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D5-D7. Organogenesis onset. Downregulation of early embryo enriched transcripts and birth of adult lineages within the blastomere population. Early embryonic gut formation continues. Yolk ingestion into the gut cavity. Days 5-7 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 5 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/stage5.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000005 xsd:string
[Term]
id: PLANA:0000006
name: Stage 6
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D7-D9. Organogenesis and morphogenesis. Definitive organ formation. Temporary embryonic cell types degenerate. Embryo elongation. Days 7-9 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 6 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/stage6.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000006 xsd:string
[Term]
id: PLANA:0000007
name: Stage 7
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D9-D11. Organogenesis and organ maturation continues. Embryos elongated. Eyes just visible. Onset of gliding motility. Days 9-11 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 7 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/stage7.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000007 xsd:string
[Term]
id: PLANA:0000008
name: Stage 8
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "D13-D15. Organogenesis and organ maturation continues. Hatching. Days 13-15 post-egg capsule deposition at 20˚C." [PMID:28072387]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 8 embryo. Scale bar = 100um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/stage8.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000008 xsd:string
[Term]
id: PLANA:0000009
name: sigma neoblast
def: "A heterogeneous subpopulation of neoblasts with enriched expression of SoxP-1 and SoxP-2 thought to contain both pluripotent stem cells and tissue-specific progenitors." [PMID:25017721]
is_a: PLANA:0000120 ! progenitor cell
is_a: PLANA:0000121 ! stem cell
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000009 xsd:string
[Term]
id: PLANA:0000011
name: protonephridial progenitor
def: "Neoblasts and post-mitotic, differentiating daughters coexpressing POU2-3, six1/2-2, Sal1, Eya and Osr, required for maintenance and regeneration of protonephridial cell types." [PMID:21937596]
is_a: PLANA:0000120 ! progenitor cell
relationship: BFO:0000050 PLANA:0000088 ! part of renal system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000011 xsd:string
[Term]
id: PLANA:0000012
name: neural progenitor
def: "Neoblasts and their differentiating daughters implicated in maintenance and regeneration of different tissues in the nervous system." []
is_a: PLANA:0000120 ! progenitor cell
relationship: BFO:0000050 PLANA:0000025 ! part of nervous system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000012 xsd:string
[Term]
id: PLANA:0000013
name: visceral musculature
def: "Musculature surrounding internal organs of the body." [PMID:26904543]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000428 ! part of musculature system
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000013 xsd:string
created_by: Erin Davies
[Term]
id: PLANA:0000014
name: zeta neoblast
def: "An abundant neoblast subclass consisting of p53+, zfp1+ progenitors required for maintenance and regeneration of epidermal cell type(s)." [PMID:25017721]
is_a: PLANA:0000033 ! epidermal progenitor
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000014 xsd:string
[Term]
id: PLANA:0000015
name: non ciliated epithelial cell
def: "An epithelial cell lacking cilia." []
is_a: PLANA:0000100 ! epithelial cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000015 xsd:string
[Term]
id: PLANA:0000016
name: definitive pharynx
def: "A plicate and protrusible organ that is the sole point of entry and exit for the Triclad gut. It contains epithelial, muscular, secretory and neuronal cell types." [OCLC:16809160]
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000049 ! part of digestive system
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000016 xsd:string
[Term]
id: PLANA:0000017
name: photoreceptor neuron
def: "Bipolar photoreceptor neurons with dendritic projections into the optic cup and axons that innervate the underlying brain." [PMID:21852957, PMID:22884275]
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000036 ! part of eye
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002202 PLANA:0000095 ! develops from trail cell
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000017 xsd:string
[Term]
id: PLANA:0000018
name: Category 4 cell
def: "Post-mitotic, mesenchymally and epidermally located progenitors downstream of the Category 3 cells." [PMID:25017721, PMID:26457503]
is_a: PLANA:0000015 ! non ciliated epithelial cell
is_a: PLANA:0000033 ! epidermal progenitor
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: BFO:0000050 PLANA:0000096 ! part of ventral epidermis
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000035 ! develops from Category 3 cell
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000018 xsd:string
[Term]
id: PLANA:0000019
name: muscle progenitor
def: "Progenitor neoblasts implicated in the maintenance and regeneration of muscle fibers." [PMID:25017721]
is_a: PLANA:0000120 ! progenitor cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000019 xsd:string
[Term]
id: PLANA:0000020
name: protonephridia
def: "Excretory organs consisting of flame cells, proximal tubules, and distal tubules connected to a mesenchymal collecting duct." [OCLC:16809160, PMID:21828097, PMID:26057828]
comment: Depicted by field contains a whole-mount acetylated tubulin (AcTub) staining. Scale bars: 500 μm. Inset to right shows depth-coded projection of AcTub staining. Superficial structures are in blue and deeper structures are in red. Scale bars: 50 μm
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000088 ! part of renal system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000011 ! develops from protonephridial progenitor
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/protonephridia.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000020 xsd:string
[Term]
id: PLANA:0000021
name: biotype
def: "Organisms sharing a specified genotype or karyotype." []
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000021 xsd:string
[Term]
id: PLANA:0000022
name: Category 5 cell
def: "Post-mitotic, ciliated epidermal cells." [PMID:25017721]
is_a: PLANA:0000106 ! ciliated epithelial cell
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: BFO:0000050 PLANA:0000096 ! part of ventral epidermis
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002202 PLANA:0000018 ! develops from Category 4 cell
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000022 xsd:string
[Term]
id: PLANA:0000023
name: temporary embryonic pharynx
def: "An innervated, muscular pump that ingests yolk cells into the gut cavity. The temporary embryonic pharynx is an extraembryonic tissue that forms during Stage 2, functions during Stages 3-5, and degenerates during Stages 6-7." []
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 5 embryo that zooms into the temporary embryonic pharynx.
xref: PMID:28072387
is_a: PLANA:0000063 ! extraembryonic structure
relationship: BFO:0000050 PLANA:0000058 ! part of embryonic digestive system
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/temporaryembryonicpharynx.gif
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000023 xsd:string
[Term]
id: PLANA:0000024
name: Smed asexual biotype
def: "Obligate asexual animals that reproduce solely through fission followed by whole body regeneration. Asexual Smed are stable diploids that harbor a chromosome translocation, making them karyotypically distinct from sexual Smed." [PMID:11972158]
comment: Depicted by field contains light micrscope image of asexual and sexual biotypes of Schmidtea meditteranea with their respective karyotypes. Note that the asexual bioptype has a chromosome inversion compared to the sexual.
is_a: PLANA:0000021 ! biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/smedasexualbiotype.png {comment="PMID:23136835"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000024 xsd:string
[Term]
id: PLANA:0000025
name: nervous system
def: "The nervous system is an organ system containing predominantly neuron and glial cells. In bilaterally symmetrical organisms, it is arranged in a network of tree-like structures connected to a central body. The main functions of the nervous system are to regulate and control body functions, and to receive sensory input, process this information, and generate behavior [CUMBO]." [UBERON:0001016]
xref: UBERON:0001016
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000025 xsd:string
[Term]
id: PLANA:0000026
name: definitive gut
def: "The planarian triclad gut contains a central anterior gut branch connected to two posterior gut branches arranged around the definitive pharynx. Secondary gut branches extend laterally from the primary gut branches, while tertiary gut branches extend from the secondary branches. Food and waste enter and exit the definitive gut through the defintive pharynx." [PMID:21664348]
synonym: "gut" EXACT []
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000049 ! part of digestive system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000039 ! develops from gamma neoblast
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000026 xsd:string
[Term]
id: PLANA:0000027
name: Smed sexual biotype
def: "Cross-fertilizing hemaphrodites that reproduce sexually and do not undergo fission. After mating, each parent lays an egg capsule containing one or more embryos. Sexual Smed are stable diploids." [PMID:11972158]
comment: Depicted by field contains light micrscope image of asexual and sexual biotypes of Schmidtea meditteranea with their respective karyotypes. Note that the asexual bioptype has a chromosome inversion compared to the sexual.
is_a: PLANA:0000021 ! biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/smedsexualbiotype.png {comment="PMID:23136835"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000027 xsd:string
[Term]
id: PLANA:0000028
name: Category 2 cell
def: "Post-mitotic, mesenchymally located epidermal progenitors downstream of the zeta neoblasts." [PMID:18786419, PMID:20040488, PMID:22385657, PMID:25017721, PMID:26114597]
is_a: PLANA:0000033 ! epidermal progenitor
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000014 ! develops from zeta neoblast
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000028 xsd:string
[Term]
id: PLANA:0000029
name: primitive ectoderm
def: "A single cell layer of extraembryonic, post-mitotic ectodermal cells bounding the embryo. The primitive ectoderm forms during Stage 2 and is thought to degenerate as the definitive epidermis forms during Stages 5-7." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000001.md, OCLC:20423827, OCLC:464776945, OCLC:82522822]
is_a: PLANA:0000063 ! extraembryonic structure
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000029 xsd:string
[Term]
id: PLANA:0000030
name: midline
def: "The median line/ plane of bilateral symmetry along the anteroposterior axis." []
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000030 xsd:string
[Term]
id: PLANA:0000031
name: pigment cup cell
def: "Non-neuronal, pigmented cells arrayed along the proximal side of the optic cup." [PMID:21852957, PMID:22884275]
is_a: PLANA:0000561 ! neuron associated cell (sensu Nematoda and Protostomia)
relationship: BFO:0000050 PLANA:0000075 ! part of optic cup
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002202 PLANA:0000095 ! develops from trail cell
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000031 xsd:string
[Term]
id: PLANA:0000032
name: dorsal midline
def: "The median line/ plane of bilateral symmetry along the anteroposterior axis on the dorsal surface of the animal." []
is_a: PLANA:0000030 ! midline
relationship: subdivision_of PLANA:0007504 ! dorsal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000032 xsd:string
[Term]
id: PLANA:0000033
name: epidermal progenitor
def: "Mitotically active zeta neoblasts and their post-mitotic descendants which undergo progressive differentiation and outward directed movement through the mesenchyme prior to incorporation into the epidermis, where terminal differentiation occurs." [PMID:18786419, PMID:20040488, PMID:22385657, PMID:25017721, PMID:26114597, PMID:26457503]
comment: Depicted by shows multiple epithelia progenitor cell markers via in situ as progenitors mature towards the epidermis in a transverse plane.
is_a: PLANA:0000120 ! progenitor cell
intersection_of: PLANA:0000120 ! progenitor cell
intersection_of: BFO:0000050 PLANA:0004529 ! part of integumental system
intersection_of: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
intersection_of: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
intersection_of: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: BFO:0000050 PLANA:0004529 ! part of integumental system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/epidermalprogenitor.png {xref="PMID:26457503"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000033 xsd:string
[Term]
id: PLANA:0000034
name: definitive epidermis
def: "A single cell layer of post-mitotic epithelial cells containing ciliated and non-ciliated cell types forming the exterior surface of the animal." [OCLC:16809160]
comment: At present, this definition does not apply to epithelial structures other than the dorsal and ventral epidermis (i.e., the pharyngeal epithelium).
synonym: "epidermis" EXACT []
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0004529 ! part of integumental system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002202 PLANA:0000033 ! develops from epidermal progenitor
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000034 xsd:string
[Term]
id: PLANA:0000035
name: Category 3 cell
def: "Post-mitotic, mesenchymally located epidermal progenitors downstream of the Category 2 cells." [PMID:18786419, PMID:20040488, PMID:26114597, PMID:26457503]
is_a: PLANA:0000033 ! epidermal progenitor
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000028 ! develops from Category 2 cell
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000035 xsd:string
[Term]
id: PLANA:0000036
name: eye
def: "An organ that detects light." []
comment: Depicted by field contains hematoxylin and eosin staining section of a asexual adult animal. The eyes are indicated by arrows. Scale bar = 250um
xref: UBERON:0000970
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000124 ! part of visual system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002202 PLANA:0000095 ! develops from trail cell
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/eye.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000036 xsd:string
[Term]
id: PLANA:0000037
name: definitive tissue
def: "Adult tissues built during organogenesis that are present in juveniles at birth." [PMID:28072387, PMID:2888018]
is_a: PLANA:0000113 ! tissue
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000037 xsd:string
[Term]
id: PLANA:0000038
name: ventral midline
def: "The median line/ plane of bilateral symmetry along the anteroposterior axis on the ventral surface of the animal." []
is_a: PLANA:0000030 ! midline
relationship: subdivision_of PLANA:0007505 ! ventral compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000038 xsd:string
[Term]
id: PLANA:0000039
name: gamma neoblast
def: "An abundant neoblast subclass, exhibiting enriched expression of gata456a, hnf4, prox-1 and nkx2.2, implicated in maintenance and regeneration of the definitive gut." [PMID:25017721]
is_a: PLANA:0000120 ! progenitor cell
relationship: BFO:0000050 PLANA:0000049 ! part of digestive system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000039 xsd:string
[Term]
id: PLANA:0000040
name: Schmidtea mediterranea developmental stage
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "A stage of embryonic development defined by a unique gene expression signature, morphology and chronological time post-egg capsule deposition for hermaphrodites reared at 20˚C." [PMID:28072387]
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000040 xsd:string
[Term]
id: PLANA:0000041
name: aboral hemisphere
def: "Stage 3-5 embryo hemisphere centered around the pole opposite the temporary embryonic pharynx." [PMID:28072387]
is_a: PLANA:0000423 ! embryonic subdivision
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
relationship: subdivision_of PLANA:0000116 ! embryo
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000041 xsd:string
[Term]
id: PLANA:0000042
name: anterior primary gut branch
def: "The single, central gut branch of the triclad gut anterior to the definitive pharynx." [PMID:21664348]
comment: Depicted by field contains hematoxylin and eosin staining section of a asexual adult animal. Anterior primary gut branch indicated by arrows. Scale bar = 250um
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/anteriorprimarygutbranch.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000042 xsd:string
[Term]
id: PLANA:0000043
name: dorsoventral margin
def: "Region along the edge of the animal where the dorsal and ventral surfaces meet." []
synonym: "edge" BROAD []
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000043 xsd:string
[Term]
id: PLANA:0000044
name: cephalic ganglia
def: "The planarian brain, consisting of two bilaterally symmetric lobes occupying a ventral position in the head." [OCLC:16809160\nPMID\:17999079]
synonym: "brain" BROAD []
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000044 xsd:string
[Term]
id: PLANA:0000045
name: circular muscle fiber
def: "Body wall muscle fibers arrayed around the dorsoventral axis. Upon regeneration, these are thought to be produced de novo in the blastema." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000005.md, PMID:26904543]
is_a: PLANA:0000101 ! muscle cell
relationship: BFO:0000050 PLANA:0000240 ! part of body wall musculature
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007549 ! contained in body wall musculature compartment
relationship: RO:0002202 PLANA:0000130 ! develops from circular muscle progenitor cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000045 xsd:string
[Term]
id: PLANA:0000046
name: clonogenic neoblast
def: "Pluripotent piwi-1+ stem cells that self-renew, form expanding colonies and produce differentiating daughters that contribute to multiple organ systems. cNeoblasts are predicted to be broadly distributed across the anteroposterior axis of the adult worm." [PMID:21566185]
is_a: PLANA:0000121 ! stem cell
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000046 xsd:string
[Term]
id: PLANA:0000047
name: collecting duct
def: "Non-ciliated tubules associated with the distal tubules, which cross the basement membrane and terminate in the dorsal epidermis." [PMID:26057828]
comment: Depicted by field contains a diagram representing the protonephrida unit (top) as well as a 3D rendering of confocal data depicting the same. In the diagram, terminal flame cells and their corresponding cilia are in blues, the proximal tubule is in reds, the distal tubule is in greens while the collecting duct is in purple. In the 3D rendering below the cilia (AcTub) are in blue, portions of the proximal tubule (slc6a-13) are in red while the distal tubule (slc6a-12) is in green.
synonym: "collection duct" EXACT []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000088 ! part of renal system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002220 PLANA:0000053 ! adjacent to distal tubule
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/collectingduct.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000047 xsd:string
[Term]
id: PLANA:0000048
name: diagonal muscle fiber
def: "Body wall muscle fibers arrayed diagonally along the anteroposterior axis." [PMID:26904543]
is_a: PLANA:0000101 ! muscle cell
relationship: BFO:0000050 PLANA:0000240 ! part of body wall musculature
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007549 ! contained in body wall musculature compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000048 xsd:string
[Term]
id: PLANA:0000049
name: digestive system
def: "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." []
xref: UBERON:0001007
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000049 xsd:string
[Term]
id: PLANA:0000051
name: direct development
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "Embryonic development producing juvenile animals with body plans and feeding behavior similar to adults. Juveniles grow and mature into adults without undergoing metamorphosis." [PMID:12888018]
is_a: GO:0048856 ! anatomical structure development
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000051 xsd:string
[Term]
id: PLANA:0000052
name: dispersed cleavage
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "A derived form of early embryonic cleavage present in ectolecithal embryos. Blastomeres divide asynchronously within a yolk syncytium, and division progeny do not remain in direct contact with one another." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000001.md, OCLC:20423827, OCLC:42792751, OCLC:464776945, OCLC:82522822, PMID:15599763, PMID:19197510]
is_a: GO:0048856 ! anatomical structure development
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000052 xsd:string
[Term]
id: PLANA:0000053
name: distal tubule
def: "Sinusoidal, non-ciliated tubules connected to proximal tubules within the parenchyma. Tubules are formed via intercellular junctions between two epithelial cells." [PMID:21828097]
comment: Depicted by field contains a diagram representing the protonephrida unit (top) as well as a 3D rendering of confocal data depicting the same. In the diagram, terminal flame cells and their corresponding cilia are in blues, the proximal tubule is in reds, the distal tubule is in greens while the collecting duct is in purple. In the 3D rendering below the cilia (AcTub) are in blue, portions of the proximal tubule (slc6a-13) are in red while the distal tubule (slc6a-12) is in green.
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000020 ! part of protonephridia
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000011 ! develops from protonephridial progenitor
relationship: RO:0002220 PLANA:0000047 ! adjacent to collecting duct
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/distaltubule.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000053 xsd:string
[Term]
id: PLANA:0000054
name: dorsal epidermis
def: "Single cell layer of dorsal, post-mitotic, epithelial cells containing the dorsal stripe." [OCLC:16809160]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000034 ! part of definitive epidermis
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002202 PLANA:0000033 ! develops from epidermal progenitor
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000054 xsd:string
[Term]
id: PLANA:0000055
name: dorsal stripe
def: "Ciliated epithelial cells along the dorsal midline." [PMID:17553481]
synonym: "racing stripe" BROAD []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000055 xsd:string
[Term]
id: PLANA:0000056
name: ectolecithal embryo
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "Turbellarian (freshwater flatworm) embryos that undergo a modified form of cleavage due to separation of oocyte and yolk. Yolk is not contained within oocytes, and is produced by somatic vitellogenic gland cells." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000002.md, PMID:22074376, PMID:27149082]
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: BFO:0000050 GO:0009790 ! part of embryo development
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000056 xsd:string
[Term]
id: PLANA:0000057
name: embryonic cleavage
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "The first few specialized divisions of an activated animal egg." []
xref: GO:0040016
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: BFO:0000050 GO:0009790 ! part of embryo development
relationship: RO:0002490 PLANA:0000001 ! existence overlaps Stage 1
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002496 PLANA:0000001 ! existence starts during or after Stage 1
relationship: RO:0002497 PLANA:0000002 ! existence ends during or before Stage 2
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000057 xsd:string
[Term]
id: PLANA:0000058
name: embryonic digestive system
def: "A cryptic digestive system in Stage 3-6 embryos comprised of temporary embryonic cell types and organs, including the temporary embryonic pharynx and primitive gut cells. Embryonic gut cells, likely produced from blastomeres, form a phagocytic tissue layer surrounding the inner gut cavity during Stages 4-6. It is not known whether the embryonic gut is temporary embryonic tissue or a definitive tissue. For convenience, the embryonic gut is currently designated as an extraembryonic structure because cell type specific markers for the embryonic gut do not stain the definitive gut in hatchlings or adult animals." [PMID:28072387]
is_a: PLANA:0000063 ! extraembryonic structure
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
relationship: RO:0002497 PLANA:0000007 ! existence ends during or before Stage 7
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000058 xsd:string
[Term]
id: PLANA:0000059
name: embryonic gut cell
def: "Dispersed, phagocytic gut cells that appear during Stage 4 and ultimately generate a honeycomb-like lattice surrounding the central gut cavity in Stage 5 embryos. Early embryonic gut cell specific transcripts are expressed from Stage 4-6, and are downregulated during Stage 7." [PMID:28072387]
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000058 ! part of embryonic digestive system
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002496 PLANA:0000004 ! existence starts during or after Stage 4
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000059 xsd:string
[Term]
id: PLANA:0000060
name: embryonic wall
def: "The parenchymal space between the gut cavity and the primitive ectoderm containing undifferentiated blastomeres in Stage 3-5 embryos." [OCLC:16809160, PMID:12888018]
comment: Depicted by field contains hematoxylin and eosin staining section of a stage 5 embryo with anatomical feature noted with black indicators.
is_a: PLANA:0000423 ! embryonic subdivision
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000005 ! existence ends during or before Stage 5
relationship: subdivision_of PLANA:0000116 ! embryo
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/embryonicwall.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000060 xsd:string
[Term]
id: PLANA:0000061
name: enteric musculature
def: "Visceral muscle surrounding the definitive gut." [PMID:26904543]
is_a: PLANA:0000013 ! visceral musculature
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000061 xsd:string
[Term]
id: PLANA:0000062
name: esophagus
def: "Attachment between the triclad gut and the proximal end of the definitive pharynx." [PMID:24737865\nOCLC\:16809160]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000016 ! part of definitive pharynx
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000062 xsd:string
[Term]
id: PLANA:0000063
name: extraembryonic structure
def: "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." []
xref: UBERON:0000478
is_a: PLANA:0000209 ! developing anatomical structure
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000063 xsd:string
[Term]
id: PLANA:0000064
name: flame bulb
def: "Terminal structure of protonephridia unit; consists of flame cells." [PMID:21828097\nPMID\:26057828]
comment: Depicted by field contains a diagram representing the protonephrida unit (top) as well as a 3D rendering of confocal data depicting the same (bottom). In the diagram, terminal flame cells and their corresponding cilia (flame bulb) are in blues, the proximal tubule is in reds, the distal tubule is in greens while the collecting duct is in purple. In the 3D rendering below the cilia (AcTub) are in blue, portions of the proximal tubule (slc6a-13) are in red while the distal tubule (slc6a-12) is in green.
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000020 ! part of protonephridia
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000011 ! develops from protonephridial progenitor
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/flamebulb.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000064 xsd:string
[Term]
id: PLANA:0000065
name: flame cell
def: "Terminal structure of the protonephridia unit, capping the proximal tubules. Flame cells are defined by the ‘filtration weir’, which consists of closely apposed strands of cytoplasm surrounding a central cilia bundle, and by numerous microvilli between weir and cilia. Positive for acetyated tubulin." [OCLC:16809160, PMID:21828097, PMID:26057828]
comment: Depicted by field contains a diagram representing the protonephrida unit (top) as well as a 3D rendering of confocal data depicting the same. In the diagram, terminal flame cells and their corresponding cilia are in blues, the proximal tubule is in reds, the distal tubule is in greens while the collecting duct is in purple. In the 3D rendering below the cilia (AcTub) are in blue, portions of the proximal tubule (slc6a-13) are in red while the distal tubule (slc6a-12) is in green.
is_a: PLANA:0000119 ! terminally differentiated cell
relationship: BFO:0000050 PLANA:0000064 ! part of flame bulb
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002220 PLANA:0000087 ! adjacent to proximal tubule
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/flamecell.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000065 xsd:string
property_value: UBPROP:0000003 "Has functional homology with vertebrate podocytes." xsd:string {xref="PMID:26057828"}
[Term]
id: PLANA:0000066
name: gastrodermis
def: "The single cell layer columnar epithelial lining of the intestine. The gastrodermis is surrounded by a basal lamina and enteric muscle." [PMID:21664348]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000039 ! develops from gamma neoblast
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000066 xsd:string
[Term]
id: PLANA:0000067
name: goblet cell
def: "Secretory cells that release digestive enzymes into the lumen of the intestine." [PMID:21664348]
is_a: PLANA:0000105 ! secretory cell
relationship: BFO:0000050 PLANA:0000066 ! part of gastrodermis
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000067 xsd:string
[Term]
id: PLANA:0000068
name: embryonic gut cavity
def: "Lumen of embryonic digestive tract, prior to formation of the branched defintive gut." [PMID:28072387]
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000058 ! part of embryonic digestive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000007 ! existence ends during or before Stage 7
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000068 xsd:string
[Term]
id: PLANA:0000069
name: inner longitudinal muscle fiber
def: "Inner most body wall muscle fibers arrayed along the anteroposterior axis. These fibers are thicker than the outer longitudinal muscle fibers. The pattern of these muscles differs along the dorsoventral axis, with the dorsal arrangement converging at the central zone of the anterior pole. The ventral arrangement is more parallel or may diverge slightly as it approaches the ventral pole." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000003.md, PMID:26904543]
is_a: PLANA:0000071 ! longitudinal muscle fiber
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000069 xsd:string
[Term]
id: PLANA:0000070
name: intestinal phagocyte
def: "Absorptive digestive cells that engulf food particles for intracellular digestion." [PMID:21664348]
is_a: PLANA:0000119 ! terminally differentiated cell
relationship: BFO:0000050 PLANA:0000066 ! part of gastrodermis
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000070 xsd:string
[Term]
id: PLANA:0000071
name: longitudinal muscle fiber
def: "Body wall muscle fibers arrayed along the anteroposterior axis. Upon regeneration, these muscles are thought to be established from truncated pre-existing fibers." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000005.md, PMID:26904543]
is_a: PLANA:0000101 ! muscle cell
relationship: BFO:0000050 PLANA:0000240 ! part of body wall musculature
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007549 ! contained in body wall musculature compartment
relationship: RO:0002202 PLANA:0000134 ! develops from longitudinal muscle progenitor cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000071 xsd:string
[Term]
id: PLANA:0000072
name: mouth
def: "The sole point of entry and exit for the Triclad planarian flatworm gut. The mouth is connected to the pharyngeal pouch to allow for exit and re-entry of the definitive pharynx on the ventral side of the animal. The mouth contains several cell types, including epithelial cells, muscle, and secretory cells." [OCLC:16809160]
synonym: "Manus" EXACT [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000006.md]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000049 ! part of digestive system
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000072 xsd:string
[Term]
id: PLANA:0000074
name: oocyte
def: "A female germ cell that has entered meiosis." []
xref: CL:0000023
is_a: PLANA:0000122 ! gamete
is_a: PLANA:0000229 ! female germ cell
relationship: BFO:0000050 PLANA:0000204 ! part of ovary
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000239 ! develops from oogonial cell
relationship: RO:0003001 PLANA:0000204 ! produced by ovary
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000074 xsd:string
[Term]
id: PLANA:0000075
name: optic cup
def: "A portion of the eye containing pigment cells and dendritic projections from photoreceptor neurons." [PMID:21852957, PMID:22884275]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000036 ! part of eye
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000075 xsd:string
[Term]
id: PLANA:0000076
name: oral hemisphere
def: "Stage 3-5 embryo hemisphere centered around the temporary embryonic pharynx." [PMID:28072387]
is_a: PLANA:0000423 ! embryonic subdivision
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
relationship: subdivision_of PLANA:0000116 ! embryo
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000076 xsd:string
[Term]
id: PLANA:0000077
name: organogenesis stage
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism." []
synonym: "organogenesis" EXACT []
xref: UBERON:0000111
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
is_a: UBERON:0000068 ! embryo stage
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000077 xsd:string
[Term]
id: PLANA:0000078
name: outer longitudinal muscle fiber
def: "Outer most body wall muscle fibers arrayed along the anteroposterior axis. These fibers are thinner than the inner longitudinal muscle fibers." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000003.md, PMID:26904543]
is_a: PLANA:0000071 ! longitudinal muscle fiber
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000078 xsd:string
[Term]
id: PLANA:0000079
name: parenchymal musculature
def: "Dorsal-ventral muscle fibers present through the mesenchyme." [OCLC:16809160]
comment: The depicted by field is a hemotoxylin and eosin stained sagittal section with the dorsal side up and anterior to the right. The parenchymal musculature, or dorsal ventral muscle fibers are the periodic vertical strands apparent in the middle of the image. Scale bar is 200um.
synonym: "dorsoventral muscle fibers" BROAD []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000422 ! part of tail stripe
relationship: BFO:0000050 PLANA:0000428 ! part of musculature system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/parenchymalmusculature.png%20
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000079 xsd:string
[Term]
id: PLANA:0000080
name: peripheral nervous system
def: "A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." []
xref: UBERON:0000010
is_a: PLANA:0000025 ! nervous system
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000080 xsd:string
[Term]
id: PLANA:0000081
name: pharyngeal pouch
def: "An epithelial structure housing the definitive pharynx, connected to the esophagus and mouth." [OCLC:16809160]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000049 ! part of digestive system
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000081 xsd:string
[Term]
id: PLANA:0000082
name: racing stripe
def: "Ciliated epidermal cells located along the dorsal midline." [PMID:17553481]
is_a: PLANA:0000109 ! anatomical compartment subdivision feature
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: RO:0001018 PLANA:0000032 ! contained in dorsal midline
relationship: subdivision_of PLANA:0007504 ! dorsal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000082 xsd:string
[Term]
id: PLANA:0000084
name: posterior primary gut branch
def: "The primary gut branches of the triclad gut lateral and posterior to the pharynx and pharyngeal pouch." [PMID:21664348]
comment: Depicted by field contains hematoxylin and eosin staining section of a asexual adult animal. The posterior primary gut branch is indicated by arrows. Scale bar = 250um
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000039 ! develops from gamma neoblast
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/posteriorprimarygutbranch.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000084 xsd:string
[Term]
id: PLANA:0000085
name: primitive gut cell
def: "Four large phagocytic cells associated with the temporary embryonic pharynx." [PMID:28072387]
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000058 ! part of embryonic digestive system
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000005 ! existence ends during or before Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000085 xsd:string
[Term]
id: PLANA:0000086
name: protosphere
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "Stage 2 embryo undergoing the process of sphere formation." [PMID:28072387]
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
relationship: RO:0002497 PLANA:0000002 ! existence ends during or before Stage 2
relationship: RO:0003001 PLANA:0000091 ! produced by sphere formation
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000086 xsd:string
[Term]
id: PLANA:0000087
name: proximal tubule
def: "Ciliated epithelial cells form tubules, generating coiled, branching units terminating in flame bulbs. Tubules are formed via intercellular junctions between two epithelial cells. Proximal tubules are connected to non-ciliated distal tubules within the parenchyma." [PMID:21828097]
comment: Depicted by field contains a diagram representing the protonephrida unit (top) as well as a 3D rendering of confocal data depicting the same. In the diagram, terminal flame cells and their corresponding cilia are in blues, the proximal tubule is in reds, the distal tubule is in greens while the collecting duct is in purple. In the 3D rendering below the cilia (AcTub) are in blue, portions of the proximal tubule (slc6a-13) are in red while the distal tubule (slc6a-12) is in green.
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000020 ! part of protonephridia
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000011 ! develops from protonephridial progenitor
relationship: RO:0002220 PLANA:0000053 ! adjacent to distal tubule
relationship: RO:0002220 PLANA:0000065 ! adjacent to flame cell
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/proximaltubule.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000087 xsd:string
[Term]
id: PLANA:0000088
name: renal system
def: "The renal system is an anatomical system that maintains fluid balance and contributes to electrolyte balance, acid/base balance, and disposal of nitrogenous waste products." []
xref: UBERON:0001008
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000088 xsd:string
[Term]
id: PLANA:0000089
name: secondary gut branch
def: "Gut branches, originating from and connected to the primary gut branches, that extend laterally towards the body edge." [PMID:21664348]
comment: Depicted by field contains hematoxylin and eosin staining section of a asexual adult animal. The secondary gut branch is indicated by arrows. Scale bar = 250um
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000039 ! develops from gamma neoblast
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/secondarygutbranch.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000089 xsd:string
[Term]
id: PLANA:0000090
name: sperm
def: "A mature male germ cell that develops from a spermatid." []
synonym: "spermatozoa" EXACT []
xref: CL:0000019
is_a: PLANA:0000122 ! gamete
is_a: PLANA:0000228 ! male germ cell
relationship: BFO:0000050 PLANA:0000208 ! part of testis
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000238 ! develops from elongate spermatid
relationship: RO:0003001 PLANA:0000208 ! produced by testis
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000090 xsd:string
[Term]
id: PLANA:0000091
name: sphere formation
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "Generation of a multilayered spherical embryo comprised of temporary extraembryonic tissues and undifferentiated blastomeres." [OCLC:20423827, OCLC:464776945, PMID:12888018, PMID:15599763, PMID:28072387]
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
relationship: RO:0002497 PLANA:0000002 ! existence ends during or before Stage 2
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000091 xsd:string
[Term]
id: PLANA:0000092
name: syncytial yolk cell
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "Fused yolk cells surrounding blastomeres undergoing dispersed cleavage during Stages 1 and 2." [PMID:15599763]
is_a: PLANA:0004518 ! extraembryonic cell
relationship: RO:0002490 PLANA:0000001 ! existence overlaps Stage 1
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002496 PLANA:0000001 ! existence starts during or after Stage 1
relationship: RO:0002497 PLANA:0000002 ! existence ends during or before Stage 2
relationship: RO:0003001 PLANA:0000231 ! produced by vitelline gland
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000092 xsd:string
[Term]
id: PLANA:0000093
name: tertiary gut branch
def: "Gut branches originating from and connected to the secondary gut branches." [PMID:21664348]
comment: Depicted by field contains hematoxylin and eosin staining section of a asexual adult animal. The tertiary gut branch indicated is by arrows. Scale bar = 250um
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000039 ! develops from gamma neoblast
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/tertiarygutbranch.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000093 xsd:string
[Term]
id: PLANA:0000094
name: tissue morphogenesis
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "The process in which the anatomical structures of a tissue are generated and organized." []
xref: GO:0048729
is_a: GO:0009653 ! anatomical structure morphogenesis
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: BFO:0000050 GO:0009888 ! part of tissue development
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000094 xsd:string
[Term]
id: PLANA:0000095
name: trail cell
def: "Ovo+ neoblasts and post-mitotic eye progenitors that simultaneously migrate and differentiate into photoreceptor neurons and non-neuronal pigment cup cells comprising the optic cup." [PMID:22884275]
is_a: PLANA:0000120 ! progenitor cell
relationship: BFO:0000050 PLANA:0000124 ! part of visual system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000095 xsd:string
[Term]
id: PLANA:0000096
name: ventral epidermis
def: "Single cell layer of ventral, post-mitotic, heavily ciliated epithelial cells" []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000034 ! part of definitive epidermis
relationship: BFO:0000050 PLANA:0007545 ! part of epidermal compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002202 PLANA:0000033 ! develops from epidermal progenitor
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000096 xsd:string
[Term]
id: PLANA:0000097
name: ventral nerve cord
def: "The pair of closely united ventral longitudinal nerves with their segmental ganglia that is characteristic of many elongate invertebrates (as earthworms)[BTO]. A large process bundle that runs along the vental mid-line extending from the ventral region of the nerve ring[WB]. The ventral cord is one of the distinguishing traits of the central nervous system of all arthropods (such as insects, crustaceans and arachnids) as well as many other invertebrates, such as the annelid worms[GO]." []
synonym: "ventral cord" EXACT []
xref: BTO:0002328
xref: EFO:0000896
xref: FBbt:00001102
xref: http://en.wikipedia.org/wiki/Ventral_nerve_cord
xref: MAT:0000339
xref: MIAA:0000339
xref: nlx:146329
xref: UBERON:0000934
xref: WBbt:0005829
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://purl.obolibrary.org/obo/inSubset "efo_slim"
property_value: http://purl.obolibrary.org/obo/inSubset "uberon_slim"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000097 xsd:string
property_value: UBPROP:0000001 "A cluster of neurons that extends posteriorly from the embryonic and larval brain and is surrounded by a connective tissue sheath." xsd:string
property_value: UBPROP:0000008 "The ventral nerve cords make up the nervous system of some phyla of the invertebrates, particularly within the nematodes, annelids and the arthropods. It usually consists of cerebral ganglia anteriorly with the nerve cords running down the ventral ('belly', as opposed to back) plane of the organism. This characteristic is important in qualifying the difference compared to the chordates, which have a dorsal nerve cord. Ventral nerve cords from anterior to posterior (the thoracic and abdominal tagma in the arthropods) are made up of segmented ganglia that are connected by a tract of nerve fibers passing from one side to the other of the nerve cord called commissures. The complete system bears some likeness to a rope ladder. In some animals the bilateral ganglia are fused into a single large ganglion per segment. This characteristic is found mostly in the insects." xsd:string
[Term]
id: PLANA:0000098
name: zygote
def: "Diploid cell produced by the fusion of sperm cell nucleus and egg cell." []
xref: CL:0000365
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: BFO:0000050 UBERON:0000106 ! part of zygote stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000001 ! contained in Stage 1
relationship: RO:0002496 PLANA:0000001 ! existence starts during or after Stage 1
relationship: RO:0002497 PLANA:0000001 ! existence ends during or before Stage 1
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000098 xsd:string
[Term]
id: PLANA:0000099
name: neuron
def: "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." []
synonym: "neural cell" BROAD []
xref: CL:0000540
is_a: PLANA:0000540 ! electrically signaling cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000099 xsd:string
[Term]
id: PLANA:0000100
name: epithelial cell
def: "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where the apical part is directed towards the lumen and the basal part to the basal lamina." []
xref: CL:0000066
is_a: PLANA:0000119 ! terminally differentiated cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000100 xsd:string
[Term]
id: PLANA:0000101
name: muscle cell
def: "A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." []
xref: CL:0000187
is_a: PLANA:0000539 ! electrically responsive cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000101 xsd:string
[Term]
id: PLANA:0000102
name: anatomical compartment subdivision
is_a: PLANA:0000417 ! definitive organism subdivision
property_value: PLANA:0000108 "A subdivision of an anatomical compartment." xsd:string
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000102 xsd:string
[Term]
id: PLANA:0000103
name: central nervous system
def: "The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord." []
xref: UBERON:0001017
is_a: PLANA:0000025 ! nervous system
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000103 xsd:string
[Term]
id: PLANA:0000104
name: rhabdite
def: "Straight or curved rod-like structures within the epidermal cells, oriented with long axis at right angles to the epidermal surface, that are discharged into mucous secretions." [OCLC:16809160]
is_a: PLANA:0000430 ! epithelial cell component
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: BFO:0000050 PLANA:0000096 ! part of ventral epidermis
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000006 ! existence starts during or after Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000104 xsd:string
[Term]
id: PLANA:0000105
name: secretory cell
def: "A cell that specializes in controlled release of one or more substances." []
xref: CL:0000151
is_a: PLANA:0000119 ! terminally differentiated cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000105 xsd:string
[Term]
id: PLANA:0000106
name: ciliated epithelial cell
def: "An epithelial cell that has cilia." []
xref: CL:0000067
is_a: PLANA:0000100 ! epithelial cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000106 xsd:string
[Term]
id: PLANA:0000107
name: yolk cell
def: "An extraembryonic cell, produced by somatic vitellogenic glands in adult hermaphrodites, that provides nutrition to the developing embryo." [PMID:27149082]
xref: CL:0000428
is_a: PLANA:0000119 ! terminally differentiated cell
is_a: PLANA:0000215 ! reproductive system product
relationship: BFO:0000050 PLANA:0000060 ! part of embryonic wall
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
relationship: RO:0003001 PLANA:0000231 ! produced by vitelline gland
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000107 xsd:string
[Term]
id: PLANA:0000109
name: anatomical compartment subdivision feature
def: "Feature of an organism that is a subdivision of a local region. For example, the anterior pole is a subdivision of the head." []
is_a: PLANA:0000417 ! definitive organism subdivision
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000109 xsd:string
[Term]
id: PLANA:0000110
name: definitive pharynx progenitor
def: "foxA1+ neoblasts and their post-mitotic, differentiating daughters required for maintenance and regeneration of the definitive pharynx." [PMID:24737865, PMID:25254346]
synonym: "pharynx progenitor" EXACT []
is_a: PLANA:0000120 ! progenitor cell
relationship: BFO:0000050 PLANA:0000016 ! part of definitive pharynx
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000110 xsd:string
[Term]
id: PLANA:0000111
name: proximal tubule epithelial cell
def: "Ciliated epithelial cells that assemble into proximal tubules." [PMID:21828097]
is_a: PLANA:0000106 ! ciliated epithelial cell
relationship: BFO:0000050 PLANA:0000087 ! part of proximal tubule
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000111 xsd:string
[Term]
id: PLANA:0000112
name: Schmidtea mediterranea developmental term
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "A term used to describe a developmental process during Schmidtea mediterranea embryogenesis." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000000.md]
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000112 xsd:string
[Term]
id: PLANA:0000113
name: tissue
def: "Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000000.md, UBERON:0000479]
is_a: PLANA:0000427 ! multicellular anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000113 xsd:string
[Term]
id: PLANA:0000114
name: anatomical system
def: "Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function." []
xref: UBERON:0000467
is_a: PLANA:0000427 ! multicellular anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000114 xsd:string
[Term]
id: PLANA:0000115
name: distal tubule epithelial cell
def: "Nonciliated epithelial cells that assemble into protonephridial proximal tubules." [PMID:21828097]
comment: Depicted by field contains a diagram representing the protonephrida unit (top) as well as a 3D rendering of confocal data depicting the same. In the diagram, terminal flame cells and their corresponding cilia are in blues, the proximal tubule is in reds, the distal tubule is in greens while the collecting duct is in purple. In the 3D rendering below the cilia (AcTub) are in blue, portions of the proximal tubule (slc6a-13) are in red while the distal tubule (slc6a-12) is in green.
is_a: PLANA:0000015 ! non ciliated epithelial cell
relationship: BFO:0000050 PLANA:0000053 ! part of distal tubule
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/distaltubuleepithelialcell.png {xref="PMID:26057828"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000115 xsd:string
[Term]
id: PLANA:0000116
name: embryo
def: "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." []
xref: UBERON:0000922
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
is_a: PLANA:0000215 ! reproductive system product
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000116 xsd:string
[Term]
id: PLANA:0000117
name: embryonic structure
def: "Anatomical structure that is part of an embryo." []
xref: UBERON:0002050
is_a: PLANA:0000209 ! developing anatomical structure
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000117 xsd:string
[Term]
id: PLANA:0000118
name: collecting duct epithelial cell
def: "Nonciliated epithelial cells that assemble into collecting ducts." [PMID:26057828]
is_a: PLANA:0000015 ! non ciliated epithelial cell
relationship: BFO:0000050 PLANA:0000047 ! part of collecting duct
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000118 xsd:string
[Term]
id: PLANA:0000119
name: terminally differentiated cell
def: "A post-mitotic, terminally differentiated cell type found in planarian embryos, juveniles and/or adult animals." []
is_a: PLANA:0000499 ! cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000119 xsd:string
[Term]
id: PLANA:0000120
name: progenitor cell
def: "A cycling neoblast and/or post-mitotic cell that is primed or irreversibly committed to a tissue-specific differentation program" []
synonym: "precursor cell" BROAD []
is_a: PLANA:0000499 ! cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000120 xsd:string
[Term]
id: PLANA:0000121
name: stem cell
def: "A relatively undifferentiated cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." []
xref: CL:0000034
is_a: PLANA:0000499 ! cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000121 xsd:string
[Term]
id: PLANA:0000122
name: gamete
def: "A mature sexual reproductive cell having a single set of unpaired chromosomes." []
xref: CL:0000300
is_a: PLANA:0000215 ! reproductive system product
is_a: PLANA:0000227 ! germ cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
relationship: RO:0003001 PLANA:0000217 ! produced by gonad
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000122 xsd:string
[Term]
id: PLANA:0000123
name: embryonic cell
def: "A cell of the embryo." []
xref: CL:0002321
is_a: PLANA:0000499 ! cell
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000123 xsd:string
[Term]
id: PLANA:0000124
name: visual system
def: "The sensory system subserving the sense of vision." []
xref: UBERON:0002104
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000124 xsd:string
[Term]
id: PLANA:0000125
name: sensory system
def: "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." [UBERON:0001032]
xref: UBERON:0001032
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000125 xsd:string
[Term]
id: PLANA:0000126
name: reproductive system
def: "Anatomical system that has as its parts the organs concerned with reproduction." []
xref: UBERON:0000990
is_a: PLANA:0000114 ! anatomical system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000126 xsd:string
[Term]
id: PLANA:0000127
name: oviduct epithelial cell
def: "Ciliated epithelial cells that assemble into the oviduct." [PMID:22074376]
is_a: PLANA:0000106 ! ciliated epithelial cell
relationship: BFO:0000050 PLANA:0004532 ! part of oviduct epithelium
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000127 xsd:string
[Term]
id: PLANA:0000128
name: sperm duct epithelial cell
def: "Ciliated epithelial cells comprising the sperm ducts." [PMID:19022767\nPMID\:22074376]
is_a: PLANA:0000106 ! ciliated epithelial cell
relationship: BFO:0000050 PLANA:0004533 ! part of sperm duct epithelium
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000128 xsd:string
[Term]
id: PLANA:0000129
name: anatomical structure
def: "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." []
xref: CARO:0000003
is_a: PLANA:0000424 ! material anatomical entity
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000129 xsd:string
[Term]
id: PLANA:0000130
name: circular muscle progenitor cell
def: "piwi-1+, nkx1-1+ progenitor neoblasts required for specification of circular muscle fibers." [PMID:29168507]
is_a: PLANA:0000019 ! muscle progenitor
relationship: BFO:0000050 PLANA:0000240 ! part of body wall musculature
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000130 xsd:string
[Term]
id: PLANA:0000131
name: primordium
def: "Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue." []
xref: UBERON:0001048
is_a: PLANA:0000432 ! regenerating anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000131 xsd:string
[Term]
id: PLANA:0000132
name: gametogenesis
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "The production of haploid germ cells from diploid precursor cells through meiosis." [PMID:19022767]
is_a: GO:0048609 ! multicellular organismal reproductive process
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: BFO:0000050 GO:0019953 ! part of sexual reproduction
relationship: PLANA:0007536 PLANA:0004503 ! specific_to sexually mature adult
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000132 xsd:string
[Term]
id: PLANA:0000133
name: mechanoreceptor cell
def: "A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system." [PMID:7466176\nPMID\:18202849]
is_a: PLANA:0000552 ! sensory neuron
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "mechanoreceptor" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000133 xsd:string
[Term]
id: PLANA:0000134
name: longitudinal muscle progenitor cell
def: "piwi-1+, myoD+, snail-1+ progenitor neoblasts required for specification and creation of longitudinal muscle fibers." [PMID:29168507]
is_a: PLANA:0000019 ! muscle progenitor
relationship: BFO:0000050 PLANA:0000240 ! part of body wall musculature
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000134 xsd:string
[Term]
id: PLANA:0000135
name: female primordial germ cell
def: "Definition forthcoming" []
is_a: PLANA:0000121 ! stem cell
is_a: PLANA:0000229 ! female germ cell
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000135 xsd:string
[Term]
id: PLANA:0000136
name: whole organism
def: "Anatomical structure that is an individual member of of Schmidtea mediterranea or any other flatworm of the class Turbellaria." []
xref: UBERON:0000468
is_a: PLANA:0000129 ! anatomical structure
[Term]
id: PLANA:0000137
name: regeneration
namespace: biological_process
def: "The regrowth of a lost or destroyed body part, such as an organ or tissue. This process may occur via renewal, repair, and/or growth alone (i.e. increase in size or mass)." [GOC:mah, GOC:pr]
synonym: "regernative development" EXACT []
xref: GO:0031099
xref: Wikipedia:Regeneration_(biology)
is_a: GO:0048856 ! anatomical structure development
[Term]
id: PLANA:0000201
name: bursal canal
def: "The passageway connecting the gonopore to the bursa (genital atrium). Part of the copulatory apparatus. During mating, sperm from a partner is deposited into the bursal canal, where it collects in the bursa before travelling up the oviducts to the bursa. Egg capsules pass through the bursal canal as they are laid through the gonopore." [PMID:22074376]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000232 ! part of copulatory apparatus
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000201 xsd:string
[Term]
id: PLANA:0000203
name: gonopore
def: "The gonopore, a component of the copulatory apparatus, is an opening located on the ventral side of the animal posterior to the definitive pharynx. The gonopore is the sole point of exit and entry for the reproductive system, allowing from reciprocal exchange of sperm during copulation and egg capsule laying." [PMID:22074376]
synonym: "genital pore" EXACT []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000232 ! part of copulatory apparatus
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000203 xsd:string
[Term]
id: PLANA:0000204
name: ovary
def: "A gonad containing female germline stem cells which fuel oocyte production. Two ovaries are located ventally, underneath the body wall musculature, immediately posterior to the cephalic ganglia (brain) and adjacent to the ventral nerve cords. The neoblast compartment, including piwi-1+, nanos+ primordial germ cells, fuel formation of the ovaries during juvenile development." [PMID:17376870]
is_a: PLANA:0000217 ! gonad
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000204 xsd:string
[Term]
id: PLANA:0000205
name: oviduct
def: "Ciliated tubes adjacent to the ventral nerve cords, adjoining the tuba and the bursal canal, that transport fertilized oocytes to the genital atrium." [PMID:22074376]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000205 xsd:string
[Term]
id: PLANA:0000206
name: penis papilla
def: "A rounded protuberance, connected to the seminal vesicles, responsible for transferring semen into a mating partner's bursal canal." [PMID:22074376]
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000232 ! part of copulatory apparatus
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000206 xsd:string
[Term]
id: PLANA:0000207
name: sperm duct
def: "A network of tubes that transport sperm from the testes to the seminal vesicles. Tubes connect each testis to ducts that run along the ventral nerve cords. The ducts bifurcate immediately posterior to the pharynx, where they connect to the seminal vesicles." [PMID:19022767\nPMID\:22074376]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000207 xsd:string
[Term]
id: PLANA:0000208
name: testis
def: "A gonad containing male germline stem cells which fuel sperm production. Testes are located dorsolaterally, and are excluded from the head. The neoblast compartment, including piwi-1+, nanos+ primordial germ cells, fuels formation of testes during juvenile development and regeneration." [PMID:19022767]
is_a: PLANA:0000217 ! gonad
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000208 xsd:string
[Term]
id: PLANA:0000209
name: developing anatomical structure
def: "Anatomical structure that is present during embryonic development." []
xref: UBERON:0005423
is_a: PLANA:0000129 ! anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000209 xsd:string
[Term]
id: PLANA:0000211
name: primitive ectoderm cell
def: "Primitive ectoderm cells differentiate from the blastomere population, exit the cell cycle and interact to boud the embryo during Stage 2." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000001.md, OCLC:20423827, OCLC:464776945, OCLC:82522822]
is_a: PLANA:0000106 ! ciliated epithelial cell
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000029 ! part of primitive ectoderm
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000211 xsd:string
[Term]
id: PLANA:0000212
name: blastomere compartment
def: "Undifferentiated, zygote-derived cleavage progeny that give rise to temporary embryonic tissues during Stage 2, continue dividing asynchronously in the embryonic wall, and ultimately give rise to neoblasts and adult lineage progenitors beginning in Stage 5." [PMID:28072387]
is_a: PLANA:0000117 ! embryonic structure
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000060 ! contained in embryonic wall
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000098 ! develops from zygote
relationship: RO:0002490 PLANA:0000001 ! existence overlaps Stage 1
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002496 PLANA:0000001 ! existence starts during or after Stage 1
relationship: RO:0002497 PLANA:0000005 ! existence ends during or before Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000212 xsd:string
[Term]
id: PLANA:0000214
name: juvenile
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "A sexually immature member of the Schmidtea mediterranea sexuallly reproducing biotype." []
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000214 xsd:string
[Term]
id: PLANA:0000215
name: reproductive system product
def: "Products of the reproductive system include gametes, zygotes, yolk cells and egg capsules." []
is_a: PLANA:0000129 ! anatomical structure
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0003001 PLANA:0000126 ! produced by reproductive system
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000215 xsd:string
[Term]
id: PLANA:0000216
name: egg capsule
def: "A proteinaceous, semi-permeable shell housing yolk cells and one or more embryos. Egg capsules are anchored to a substrate via a stalk." [PMID:18942102]
comment: Depicted by field shows a light microscopy image of egg capsules with a scale bar of 3mm
is_a: PLANA:0000215 ! reproductive system product
relationship: RO:0003001 PLANA:0004503 ! produced by sexually mature adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/eggcapsule.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000216 xsd:string
[Term]
id: PLANA:0000217
name: gonad
def: "Reproductive organ that produces and releases eggs (ovary) or sperm (testis)." []
xref: UBERON:0000991
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000217 xsd:string
[Term]
id: PLANA:0000218
name: male primordial germ cell
def: "Neoblasts coexpressing piwi-1 and nanos that are required for male and female gonad formation. Primordial germ cells are present in both asexual and sexual adults." [PMID:17376870]
is_a: PLANA:0000121 ! stem cell
is_a: PLANA:0000228 ! male germ cell
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000218 xsd:string
[Term]
id: PLANA:0000219
name: male germline stem cell
def: "gh4+, nanos+ cells residing at the testis periphery that self-renew and give rise to differentiating daughters that will ultimately produce haploid sperm." [PMID:19022767, PMID:20844018, PMID:27163480, PMID:27330085]
synonym: "spermatogonial stem cell (SSC)" EXACT []
is_a: PLANA:0000121 ! stem cell
is_a: PLANA:0000228 ! male germ cell
relationship: BFO:0000050 PLANA:0000208 ! part of testis
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000218 ! develops from male primordial germ cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000219 xsd:string
[Term]
id: PLANA:0000220
name: spermatogonium
def: "An euploid male germ cell of an early stage of spermatogenesis. In planaria, the gh4+ stem cell daughter exiting the niche undergoes three rounds of transit amplifying division with incomplete cytokinesis prior to transitioning to terminal differentiation." [PMID:27163480, PMID:27330085]
xref: CL:0000020
is_a: PLANA:0000120 ! progenitor cell
is_a: PLANA:0000228 ! male germ cell
relationship: BFO:0000050 PLANA:0000208 ! part of testis
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000219 ! develops from male germline stem cell
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000220 xsd:string
[Term]
id: PLANA:0000221
name: spermatocyte
def: "A tektin-1+ male germ cell that develops from spermatogonia. The euploid primary spermatocytes undergo meiosis and give rise to the haploid secondary spermatocytes which in turn give rise to spermatids." [PMID:27330085]
xref: CL:0000017
is_a: PLANA:0000228 ! male germ cell
relationship: BFO:0000050 PLANA:0000208 ! part of testis
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000220 ! develops from spermatogonium
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000221 xsd:string
[Term]
id: PLANA:0000222
name: spermatid
def: "A male germ cell that develops from the haploid secondary spermatocytes. Without further division, spermatids undergo structural changes and give rise to spermatozoa." []
xref: CL:0000018
is_a: PLANA:0000228 ! male germ cell
relationship: BFO:0000050 PLANA:0000208 ! part of testis
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000222 xsd:string
[Term]
id: PLANA:0000223
name: female germline stem cell
def: "A piwi-1+, nanos+ cell residing in the ovary that self-renews and give rise to oogonial cells that differentiate into oocytes." [PMID:19022767, PMID:20844018]
is_a: PLANA:0000121 ! stem cell
is_a: PLANA:0000229 ! female germ cell
relationship: BFO:0000050 PLANA:0000204 ! part of ovary
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000135 ! develops from female primordial germ cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000223 xsd:string
[Term]
id: PLANA:0000224
name: cement gland
def: "Glands surrounding the copulatory bursa that are required for production of the proteinaceous egg capsule shell and stalk." [ASIN:B000M4NK9M, PMID:18942102, PMID:22074376, PMID:27149082]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000232 ! part of copulatory apparatus
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000224 xsd:string
[Term]
id: PLANA:0000225
name: oviparity
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "A reproductive strategy in which eggs are laid, with most embryonic development occurring outside of the parent." [PMID:19022767]
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
relationship: BFO:0000050 GO:0009790 ! part of embryo development
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000225 xsd:string
[Term]
id: PLANA:0000226
name: cross-fertilization
namespace: Schmidtea_mediterranea_Developmental_Terms
def: "Fertilization of an oocyte by sperm from a different individual. Reciprocal exchange of sperm occurs during Schmidtea mediterranea copulation." [PMID:19022767, PMID:28812561]
is_a: GO:0007338 ! single fertilization
is_a: PLANA:0000112 ! Schmidtea mediterranea developmental term
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000226 xsd:string
[Term]
id: PLANA:0000227
name: germ cell
def: "1. A gamete (as an egg or sperm cell) or one of its antecedent cells. 2. A mature male or female germ cell usually possessing a haploid chromosome set and capable of initiating formation of a new diploid individual by fusion with a gamete of the opposite sex." []
xref: BTO:0000535
is_a: PLANA:0000499 ! cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000227 xsd:string
[Term]
id: PLANA:0000228
name: male germ cell
def: "A male germ cell is a germ cell that supports male gamete production." []
xref: CL:0000015
is_a: PLANA:0000227 ! germ cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000228 xsd:string
[Term]
id: PLANA:0000229
name: female germ cell
def: "Female germ cell is a germ cell that supports female gamete production." []
xref: CL:0000021
is_a: PLANA:0000227 ! germ cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000229 xsd:string
[Term]
id: PLANA:0000230
name: tuba
def: "A sperm storage organ located immediately posterior to the ovary, at the anterior end of the oviduct. Oocytes exiting the ovary are fertilized in the tuba as they enter the oviduct." [PMID:19022767\nPMID\:20844018\nPMID\:22074376\nPMID\:27149082]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000230 xsd:string
[Term]
id: PLANA:0000231
name: vitelline gland
def: "Glands surrounding the oviducts which produce yolk cells. Yolk cells deposited into the oviducts travel to the genital atrium where they are packaged, along with one or more zygotes, into developing egg capsules." [PMID:16932928, PMID:18942102, PMID:27149082]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
relationship: RO:0003000 PLANA:0000107 ! produces yolk cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000231 xsd:string
[Term]
id: PLANA:0000232
name: copulatory apparatus
def: "Accessory reproductive structures involved in copulation, egg capsule development and laying." [PMID:22074376]
is_a: PLANA:0000427 ! multicellular anatomical structure
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000232 xsd:string
[Term]
id: PLANA:0000233
name: copulatory bursa
def: "A chamber where egg capsules are formed. One or more zygotes and yolk cells produced by the vitelline glands collect in the copulatory bursa; glands surrounding the copulatory bursa produce the egg capsule shell.\n Nascent egg capsules exit the body by passing through the bursal canal and gonopore. The copulatory bursa is synonymous with the term genital atrium." [PMID:22074376]
synonym: "bursa" EXACT []
synonym: "genital atrium" EXACT []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000232 ! part of copulatory apparatus
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000233 xsd:string
[Term]
id: PLANA:0000234
name: seminal vesicle
def: "Glandular pouches adjoining the sperm ducts which produce seminal fluid." [PMID:19022767, PMID:22074376]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000232 ! part of copulatory apparatus
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000234 xsd:string
[Term]
id: PLANA:0000237
name: round spermatid
def: "A cyst of 8 interconnected spermatocytes undergoes meiosis, producing 32 haploid round spermatids. Round spermatids express protein kinase A, and undergo morphogenesis to produce mature sperm." [PMID:27163480, PMID:27330085]
is_a: PLANA:0000222 ! spermatid
relationship: RO:0002202 PLANA:0000221 ! develops from spermatocyte
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000237 xsd:string
[Term]
id: PLANA:0000238
name: elongate spermatid
def: "Spermatids expressing protein kinase A undergoing morphogenic changes to make mature sperm." [PMID:27163480, PMID:27330085]
is_a: PLANA:0000222 ! spermatid
relationship: RO:0002202 PLANA:0000237 ! develops from round spermatid
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000238 xsd:string
[Term]
id: PLANA:0000239
name: oogonial cell
def: "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." []
xref: FMA:83673
is_a: PLANA:0000120 ! progenitor cell
is_a: PLANA:0000229 ! female germ cell
relationship: BFO:0000050 PLANA:0000204 ! part of ovary
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0000223 ! develops from female germline stem cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000239 xsd:string
[Term]
id: PLANA:0000240
name: body wall musculature
def: "Any collection of muscles that is part of a body wall [Automatically generated definition]." []
xref: BSA:0000058
xref: BTO:0001863
xref: FMA:86931
xref: UBERON:0004462
xref: WBbt:0005813
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000428 ! part of musculature system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007549 ! contained in body wall musculature compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "body wall muscles" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000240 xsd:string
property_value: UBPROP:0000008 "define generically to encompass both vertebrates and invertebrates" xsd:string
[Term]
id: PLANA:0000241
name: pharyngeal longitudinal muscle fiber
def: "Pharynx muscle fibers running anteroposterior (proximal to distal)." [ASIN:B000M4NK9M]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000478 ! part of musculature of pharynx
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000241 xsd:string
[Term]
id: PLANA:0000242
name: anatomical cavity
def: "Anatomical space which contains portions of one or more body substances and is bounded by the internal surface of one maximally connected anatomical structure. Examples: cranial cavity, pharyngeal recess space, nasal cavity, tooth socket, cavity of serous sac, lumen of stomach, lumen of artery, fornix of vagina." []
xref: UBERON:0002553
is_a: PLANA:0000403 ! anatomical space
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000242 xsd:string
[Term]
id: PLANA:0000400
name: anatomical entity
def: "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." []
xref: UBERON:0001062
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000400 xsd:string
[Term]
id: PLANA:0000401
name: immaterial anatomical entity
def: "Anatomical entity that has no mass." []
synonym: "immaterial physical anatomical entity" EXACT []
xref: AAO:0010265
xref: AEO:0000007
xref: BILA:0000007
xref: CARO:0000007
xref: EHDAA2:0003007
xref: FBbt:00007015
xref: FMA:67112
xref: HAO:0000007
xref: TAO:0001835
xref: TGMA:0001827
xref: UBERON:0000466
xref: VHOG:0001727
is_a: PLANA:0000400 ! anatomical entity
property_value: http://purl.obolibrary.org/obo/inSubset "upper_level"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000401 xsd:string
[Term]
id: PLANA:0000402
name: anatomical point
def: "Non-material anatomical entity of zero dimension, which forms a boundary of an anatomical line or surface." []
xref: AAO:0010266
xref: AEO:0000009
xref: BILA:0000009
xref: CARO:0000009
xref: EHDAA2:0003009
xref: FMA:9658
xref: TAO:0001839
xref: UBERON:0006983
is_a: PLANA:0000401 ! immaterial anatomical entity
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000402 xsd:string
[Term]
id: PLANA:0000403
name: anatomical space
def: "Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures." []
synonym: "lumen" BROAD []
synonym: "lumen space" EXACT []
synonym: "space" BROAD []
xref: AAO:0010110
xref: AEO:0000005
xref: BILA:0000005
xref: C94478
xref: CARO:0000005
xref: EHDAA2:0003005
xref: FBbt:00007017
xref: FMA:5897
xref: HAO:0000005
xref: http://linkedlifedata.com/resource/umls/id/C0524461
xref: TAO:0001668
xref: TGMA:0001825
xref: UBERON:0000464
xref: UMLS:C0524461
xref: VHOG:0001728
xref: XAO:0003190
xref: ZFA:0001643
is_a: PLANA:0000401 ! immaterial anatomical entity
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "anatomical spaces" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "upper_level"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000403 xsd:string
[Term]
id: PLANA:0000404
name: cavity of pharynx
def: "A anatomical space that is enclosed by a pharynx." []
comment: Depicted by field contains hematoxylin and eosin staining section of a asexual adult animal. Cavity of pharynx is indicated by arrows. Scale bar = 250um
xref: UBERON:0001731
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000016 ! part of definitive pharynx
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/cavityofpharynx.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000404 xsd:string
[Term]
id: PLANA:0000405
name: lumen of digestive tract
def: "An anatomical space that is surrounded by a digestive tract." [PMID:21664348]
comment: Depicted by field contains hematoxylin and eosin staining on a coronal section of a asexual adult animal. The lumen of the digestive tract is indicated by arrows. Scale bar = 250um
xref: UBERON:0006909
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000007 ! existence starts during or after Stage 7
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/lumenofdigestivetract.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000405 xsd:string
[Term]
id: PLANA:0000406
name: oral opening
def: "The orifice that connects the mouth to the exterior of the body." []
xref: UBERON:0000166
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000072 ! part of mouth
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000406 xsd:string
[Term]
id: PLANA:0000407
name: pharnygeal pouch cavity
def: "Anatomical space between the definitive pharynx and the epithelial cells comprising parapharyngeal pouch." [OCLC:16809160]
comment: Depicted by field contains hematoxylin and eosin staining coronal section section of a asexual adult animal. Parapharyngeal pouch cavity is indicated by arrows. Scale bar = 250um
is_a: PLANA:0000242 ! anatomical cavity
relationship: BSPO:0015014 PLANA:0000413 ! immediately_superficial_to pharynx outer epithelial surface
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/parapharyngealpouchcavity.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000407 xsd:string
[Term]
id: PLANA:0000409
name: apical epidermis surface
def: "The apical surface of the single layered epidermis that is in contact with the environment." []
comment: Depicted by field is an electron micrograph of the dorsal epidermis in a transverse plane from an asexual adult animal. The apical epidermis surface is noted with magenta arrows. Scale bar is 5um.
is_a: BSPO:0000373 ! apical surface
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: BFO:0000050 PLANA:0000096 ! part of ventral epidermis
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/apicalepidermissurface.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000409 xsd:string
[Term]
id: PLANA:0000410
name: basal epidermis surface
def: "The basal surface of the epidermal epithelium in direct contact with the basal lamina." []
comment: The depicted by field is an electron micrograph of the dorsal epidermis in a transverse plane. The basal epidermis surface is noted with magenta arrows. Scale bar is 5um.
is_a: BSPO:0000374 ! basal surface
relationship: BFO:0000050 PLANA:0000054 ! part of dorsal epidermis
relationship: BFO:0000050 PLANA:0000096 ! part of ventral epidermis
relationship: BSPO:0015014 PLANA:0001005 ! immediately_superficial_to basal lamina of epithelium
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/basalepidermissurface.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000410 xsd:string
[Term]
id: PLANA:0000411
name: lumen gut surface
def: "The surface of the gut lumen in contact with ingested food." [PMID:21664348]
comment: The depicted by field is a hemotoxylin and eosin stained coronal section encompassing the anterior primary gut branch. The lumen gut surface is marked by black arrows. Scale bar is 200um.
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000066 ! part of gastrodermis
relationship: BSPO:0015014 PLANA:0000405 ! immediately_superficial_to lumen of digestive tract
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/lumengutsurface.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000411 xsd:string
[Term]
id: PLANA:0000412
name: pharynx lumen epithelial surface
def: "The epithelial surface lining the interior of the pharynx, facing the lumen." [UBERON:0001731]
comment: The depicted by field is a hemotoxylin and eosin stained coronal section encompassing the pharynx and surrounding tissues. The pharynx lumen epithelial surface is marked by black arrows. Scale bar is 200um.
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000472 ! part of outer pharyngeal epithelium
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/pharynxlumenepithelialsurface.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000412 xsd:string
[Term]
id: PLANA:0000413
name: pharynx outer epithelial surface
def: "Epithelial surface covering the outside of the pharynx." [doi:10.1002/jmor.1052060308\nPMID\:29865769]
comment: The depicted by field is a hemotoxylin and eosin stained coronal section encompassing the pharynx and surrounding tissues. The pharynx outer epithelial surface is marked by black arrows. Scale bar is 200um.
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000472 ! part of outer pharyngeal epithelium
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/pharynxouterepithelialsurface.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000413 xsd:string
[Term]
id: PLANA:0000414
name: pharyngeal pouch surface
def: "The surface of the parapharyngeal pouch facing the pharynx." [OCLC:16809160]
comment: The depicted by field is a hemotoxylin and eosin stained coronal section encompassing the pharynx and surrounding tissues. Anterior is up. The parapharyngeal pouch surface is marked by black arrows. Scale bar is 200um.
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000081 ! part of pharyngeal pouch
relationship: BSPO:0015014 PLANA:0000407 ! immediately_superficial_to pharnygeal pouch cavity
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/parapharyngealpouchsurface.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000414 xsd:string
[Term]
id: PLANA:0000416
name: organism subdivision
def: "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." []
xref: UBERON:0000475
is_a: PLANA:0000424 ! material anatomical entity
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000416 xsd:string
[Term]
id: PLANA:0000417
name: definitive organism subdivision
def: "Anatomical structure which is a subdivision of a whole adult or juvenile organism, consisting of components of multiple anatomical systems." []
is_a: PLANA:0000416 ! organism subdivision
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000417 xsd:string
[Term]
id: PLANA:0000418
name: head
def: "The head is the anterior-most division of the body [GO]. A three dimensional compartment bounded by the anterior margin or the head and the posterior boundary of the cephalic ganglia (brain)." []
comment: Depicted by field contains diagram representation of body region.
xref: UBERON:0000033
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0007506 ! anterior compartment
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/head.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000418 xsd:string
[Term]
id: PLANA:0000419
name: prepharyngeal region
def: "Region of the juvenile or adult animal between the posterior end of the cephalic ganglia and the anterior end of the definitive pharynx." []
comment: http://purl.obolibrary.org/obo/Depicted%20by%20field%20contains%20diagram%20representation%20of%20body%20region.
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: BSPO:0000099 PLANA:0000418 ! posterior_to head
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0007506 ! anterior compartment
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/neck.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000419 xsd:string
[Term]
id: PLANA:0000420
name: parapharyngeal region
def: "Region of the animal lateral to and surrounding the definitive pharynx." []
comment: http://purl.obolibrary.org/obo/Depicted%20by%20field%20contains%20diagram%20representation%20of%20body%20region.
synonym: "trunk" BROAD []
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: BSPO:0000099 PLANA:0000419 ! posterior_to prepharyngeal region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0007507 ! posterior compartment
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/parapharyngealregion.png
property_value: IAO:0000232 "Trunk is a synonym here because the parapharyngeal region is always contained in a trunk fragment. However, a trunk fragment may also contain some neck and some tail." xsd:string
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000420 xsd:string
[Term]
id: PLANA:0000421
name: tail
def: "Caudal region, beginning at the mouth and ending at posterior pole." []
comment: Depicted by field contains diagram representation of body region.
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: BSPO:0000099 PLANA:0004527 ! posterior_to copulatory region
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0007507 ! posterior compartment
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/tail.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000421 xsd:string
[Term]
id: PLANA:0000422
name: tail stripe
def: "Medial region of the tail; the parenchymal space between the posterior primary gut branches." []
is_a: PLANA:0000109 ! anatomical compartment subdivision feature
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0000421 ! tail
relationship: subdivision_of PLANA:0007507 ! posterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000422 xsd:string
[Term]
id: PLANA:0000423
name: embryonic subdivision
def: "Anatomical structure which is a subdivision of a whole developing/ embryonic organism, consisting of components of multiple anatomical systems." []
is_a: PLANA:0000416 ! organism subdivision
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000423 xsd:string
[Term]
id: PLANA:0000424
name: material anatomical entity
def: "Anatomical entity that has mass." []
xref: UBERON:0000465
is_a: PLANA:0000400 ! anatomical entity
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000424 xsd:string
[Term]
id: PLANA:0000425
name: definitive anatomical structure
def: "Anatomical structure present in juvenile and adult planaria." []
is_a: PLANA:0000129 ! anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000425 xsd:string
[Term]
id: PLANA:0000426
name: acellular anatomical structure
def: "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue." []
xref: AAO:0010268
xref: AEO:0000040
xref: BILA:0000040
xref: CARO:0000040
xref: EHDAA2:0003040
xref: FBbt:00007013
xref: FMA:63863
xref: HAO:0000040
xref: TAO:0000382
xref: TGMA:0001841
xref: XAO:0003162
xref: ZFA:0000382
is_a: PLANA:0000129 ! anatomical structure
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "acellular anatomical structures" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "vertebrate_core"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000426 xsd:string
[Term]
id: PLANA:0000427
name: multicellular anatomical structure
def: "An anatomical structure that has more than one cell as a part." []
xref: UBERON:0010000
is_a: PLANA:0000425 ! definitive anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000427 xsd:string
[Term]
id: PLANA:0000428
name: musculature system
def: "Total musculature of the planarian body." []
xref: http://purl.obolibrary.org/obo/UBERON_0001015
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000428 xsd:string
[Term]
id: PLANA:0000429
name: neoblast compartment
def: "A heterogeneous population of pluripotent, somatic adult stem cells and lineage primed progenitors that are required for maintenance and regeneration of all cell types in planaria, including the germline." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000004.md, PMID:16311336, PMID:21566185, PMID:22899852]
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: RO:0002496 PLANA:0000005 ! existence starts during or after Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000429 xsd:string
[Term]
id: PLANA:0000430
name: epithelial cell component
def: "A part of an epithelial cell." []
is_a: PLANA:0000433 ! cellular component
relationship: BFO:0000050 PLANA:0000100 ! part of epithelial cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000430 xsd:string
[Term]
id: PLANA:0000431
name: organ
def: "Anatomical structure that performs a specific function or group of functions." []
xref: UBERON:0000062
is_a: PLANA:0000427 ! multicellular anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000431 xsd:string
[Term]
id: PLANA:0000432
name: regenerating anatomical structure
def: "An anatomical structure that is undergoing regeneration." []
xref: UBERON:0007567
is_a: PLANA:0000129 ! anatomical structure
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000432 xsd:string
[Term]
id: PLANA:0000433
name: cellular component
def: "The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together. Source: NIF_Subcellular:sao-1337158144, GOC:go_curators" []
xref: GO:0005575
is_a: PLANA:0000500 ! cell part
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000433 xsd:string
[Term]
id: PLANA:0000459
name: optic chiasma
def: "A decussation of the diencephalon where the fibers of the optic nerve cross" [PMID:18466009]
synonym: "chiasma opticum" EXACT []
synonym: "decussation of optic nerve fibers" EXACT []
synonym: "optic chiasm" EXACT []
xref: AAO:0010622
xref: BAMS:DC
xref: BAMS:OC
xref: BAMS:och
xref: BAMS:ox
xref: birnlex:1416
xref: BM:Tel-OCX
xref: C90609
xref: DHBA:10644
xref: DMBA:17783
xref: EHDAA2:0001302
xref: EHDAA:10227
xref: EMAPA:17603
xref: FMA:62045
xref: GAID:832
xref: HBA:9310
xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=459
xref: http://linkedlifedata.com/resource/umls/id/C0029126
xref: http://www.snomedbrowser.com/Codes/Details/244453006
xref: MA:0001098
xref: MBA:117
xref: MESH:D009897
xref: Optic:chiasm
xref: TAO:0000556
xref: UBERON:0000959
xref: UMLS:C0029126
xref: VHOG:0000190
xref: XAO:0004071
xref: ZFA:0000556
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: BFO:0000050 PLANA:0000124 ! part of visual system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "chiasma" xsd:string
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "chiasma nervorum opticorum" xsd:string
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "optic chiasm (Rufus of Ephesus)" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "pheno_slim"
property_value: http://purl.obolibrary.org/obo/inSubset "uberon_slim"
property_value: http://purl.obolibrary.org/obo/inSubset "vertebrate_core"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000459 xsd:string
property_value: UBPROP:0000001 "The point at which fibers of the optic nerves cross.[AAO]" xsd:string
property_value: UBPROP:0000003 "The chiasm has been studied in great detail in some animals, while in others relatively little or nothing is known. Although there are some gross architectural features that are conserved within some animals, such as birds and fish, the general picture is one of diversity. This review will attempt to consider the key features of such diversity of chiasmatic organisation in vertebrates and the mechanisms that sculpt them from the limited literature that is available. However, as so much research has been undertaken on the structure and development of the chiasm in laboratory animals, any review must consider the information that has been gleaned from them and hope that future studies will determine whether the features revealed in these animals, and the underlying mechanisms that generate them, have a common vertebrate plan.[uncertain][VHOG]" xsd:string
[Term]
id: PLANA:0000460
name: anterior commissure
def: "A bundle of nerve fibers connecting the two cephalic ganglia." []
xref: UBERON:0000935
is_a: PLANA:0000494 ! brain commissure
relationship: BFO:0000050 PLANA:0000418 ! part of head
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000460 xsd:string
[Term]
id: PLANA:0000461
name: lateral branches
def: "Nerve branches that extend from the lateral side of each cephalic ganglia lobe. Each lobe has nine lateral branches which terminate in sensory organs. Evidence suggests they play a role in chemosensation." [PMID:12128224, PMID:18466009, PMID:27612384, PMID:4452894, PMID:9493832]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000044 ! part of cephalic ganglia
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000461 xsd:string
[Term]
id: PLANA:0000462
name: sensory cell
def: "A cell that performs a sensory function." []
is_a: PLANA:0000119 ! terminally differentiated cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000462 xsd:string
[Term]
id: PLANA:0000463
name: cholinergic neuron
def: "Neurons that express choline acetyltransferase." [PMID:20338223]
is_a: PLANA:0000556 ! neurosecretory neuron
relationship: BFO:0000050 PLANA:0000465 ! part of pharynx nerve plexus
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000463 xsd:string
[Term]
id: PLANA:0000464
name: GABAergic neuron
def: "Neurons that express glutamine decarboxylase." [PMID:18440152]
is_a: PLANA:0000556 ! neurosecretory neuron
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000464 xsd:string
[Term]
id: PLANA:0000465
name: pharynx nerve plexus
def: "Plexus of nerves located in the definitive pharynx comprised of inner and outer wall rings." []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000016 ! part of definitive pharynx
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000465 xsd:string
[Term]
id: PLANA:0000466
name: subepidermal nerve plexus
def: "Plexus of nerves located just between the definitive epidermis and the body wall musculature." [PMID:27612384\ndoi\:10.1002/jmor.1051550208]
is_a: PLANA:0000492 ! nerve plexus
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000466 xsd:string
[Term]
id: PLANA:0000467
name: submuscular nerve plexus
def: "Plexus of nerves that innervate the body wall muscles." []
is_a: PLANA:0000492 ! nerve plexus
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000467 xsd:string
[Term]
id: PLANA:0000468
name: gastrodermal plexus
def: "A thin net of single nerve fibers located around the gut." [PMID:17999079\ndoi.org/10.1002/jmor.1051550208]
is_a: PLANA:0000492 ! nerve plexus
relationship: BFO:0000050 PLANA:0000026 ! part of definitive gut
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000468 xsd:string
[Term]
id: PLANA:0000470
name: neuropil
def: "A cluster of neurites that is part of a nervous system and forms a network of dendrites and axons where synapses are present and in which neuronal somata do not occur." [PMID:27612384]
xref: birnlex:1142
xref: BTO:0005268
xref: C12617
xref: CALOHA:TS-2403
xref: FBbt:00005139
xref: FMA:261269
xref: GAID:740
xref: http://en.wikipedia.org/wiki/Neuropil
xref: http://linkedlifedata.com/resource/umls/id/C0228081
xref: http://www.snomedbrowser.com/Codes/Details/67146008
xref: MESH:D019581
xref: NIF_Subcellular:sao205380252
xref: UBERON:0002606
xref: UMLS:C0228081
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "neuropilus" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "uberon_slim"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000470 xsd:string
property_value: UBPROP:0000001 "Multi-cell component structure of the central nervous system consisting largely of neuron projections (tracts and synaptic neuropil domains) and associated glial cells. This corresponds to the part of the CNS that is enclosed by the cortex." xsd:string
[Term]
id: PLANA:0000472
name: outer pharyngeal epithelium
def: "Heavily ciliated epidermal cells covering the outer surface of the pharynx shaft. These are \"insunk\" epidermal cells in which the nuclei reside behind the layers of longitudinal and circumferential muscles and the epithelial cell body sends out a ciliated projection to the surface to cover and encase the shaft." [ASIN:B000M4NK9M]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0004528 ! part of pharyngeal epithelium
relationship: BSPO:0015014 PLANA:0000476 ! immediately_superficial_to outer pharyngeal longitudinal muscle fiber
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000472 xsd:string
[Term]
id: PLANA:0000473
name: outer pharyngeal circular muscle fiber
def: "Pharynx muscle fibers thar run circumferentially about the pharynx and lie just beneath the outer longitudinal pharynx muscles." [ASIN:B000M4NK9M]
is_a: PLANA:0007535 ! pharyngeal circular muscle fiber
relationship: BSPO:0001107 PLANA:0000476 ! immediately_deep_to outer pharyngeal longitudinal muscle fiber
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000473 xsd:string
[Term]
id: PLANA:0000474
name: inner pharyngeal circular muscle fiber
def: "Pharynx muscle fiber that runs circumferentially about the pharynx and lies just beneath the inner logitudinal pharynx muscle fibers." [ASIN:B000M4NK9M]
is_a: PLANA:0007535 ! pharyngeal circular muscle fiber
relationship: BSPO:0001107 PLANA:0007534 ! immediately_deep_to inner pharyngeal epithelium
relationship: BSPO:0015014 PLANA:0000475 ! immediately_superficial_to inner pharyngeal longitudinal muscle fiber
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000474 xsd:string
[Term]
id: PLANA:0000475
name: inner pharyngeal longitudinal muscle fiber
def: "Pharynx muscle fibers running anteroposterior which lie beneath both the inner circular muscle fibers and the apical, ciliated portion of the epithium lining the lumenal surface." [ASIN:B000M4NK9M]
is_a: PLANA:0000241 ! pharyngeal longitudinal muscle fiber
relationship: BSPO:0001107 PLANA:0000474 ! immediately_deep_to inner pharyngeal circular muscle fiber
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000475 xsd:string
[Term]
id: PLANA:0000476
name: outer pharyngeal longitudinal muscle fiber
def: "Pharynx muscle fibers running anteroposterior which lie just underneath the apical, cilaited portion of the outer epithelium." [ASIN:B000M4NK9M]
is_a: PLANA:0000241 ! pharyngeal longitudinal muscle fiber
relationship: BSPO:0001107 PLANA:0000472 ! immediately_deep_to outer pharyngeal epithelium
relationship: BSPO:0015014 PLANA:0000473 ! immediately_superficial_to outer pharyngeal circular muscle fiber
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000476 xsd:string
[Term]
id: PLANA:0000477
name: pharyngeal radial muscle fiber
def: "Pharynx muscle fibers that run radially, connecting the outer muscle fibers and epithelia with their inner counterparts." [ASIN:B000M4NK9M]
is_a: PLANA:0000101 ! muscle cell
relationship: BFO:0000050 PLANA:0000478 ! part of musculature of pharynx
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000477 xsd:string
[Term]
id: PLANA:0000478
name: musculature of pharynx
def: "The total musculature within the pharynx." [PMID:26904543]
xref: UBERON:0004467
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000016 ! part of definitive pharynx
relationship: BFO:0000050 PLANA:0000428 ! part of musculature system
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000478 xsd:string
[Term]
id: PLANA:0000479
name: inner pharynx nerve plexus
def: "Ring of the pharynx nerve plexus that is proximal to the lumen." []
is_a: PLANA:0000465 ! pharynx nerve plexus
relationship: BFO:0000050 PLANA:0000465 ! part of pharynx nerve plexus
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000479 xsd:string
[Term]
id: PLANA:0000480
name: outer pharynx nerve plexus
def: "Ring of the pharynx nerve plexus that is proximal to the exterior surface." [doi:10.1002/jmor.1051550208\nPMID\:27612384]
is_a: PLANA:0000465 ! pharynx nerve plexus
relationship: BFO:0000050 PLANA:0000465 ! part of pharynx nerve plexus
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000480 xsd:string
[Term]
id: PLANA:0000481
name: serotonergic neuron
def: "Neurons that express the neurotransmitter serotonin." [] {comment="PMID:17624455"}
is_a: PLANA:0000556 ! neurosecretory neuron
relationship: BFO:0000050 PLANA:0000044 ! part of cephalic ganglia
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0007550 ! develops from serotonergic neural progenitor cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000481 xsd:string
[Term]
id: PLANA:0000482
name: dopaminergic neuron
def: "A neuron that expresses the neurotransmitter dopamine." [PMID:17565705]
is_a: PLANA:0000556 ! neurosecretory neuron
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000482 xsd:string
[Term]
id: PLANA:0000483
name: octopaminergic neuron
def: "Neurons that express the biogenic amine octopamine." [PMID:18926867]
is_a: PLANA:0000556 ! neurosecretory neuron
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000483 xsd:string
[Term]
id: PLANA:0000484
name: secretory system
def: "Anatomical system that has as its parts cells and glands devoted to the discharge of substances such as mucus." [PMID:20865784]
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000484 xsd:string
[Term]
id: PLANA:0000485
name: gland cell
def: "Specialized insunk epithelial cells located in the mesenchyme that participate in mucus secretion. They are characterized by elongated cell bodies with long cytoplasmic projections that terminate between, or penetrate directly through epithelial cells and form a secretory pore at the surface." [PMID:20865784]
is_a: PLANA:0000100 ! epithelial cell
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000485 xsd:string
[Term]
id: PLANA:0000486
name: secretory pore
def: "The opening by which the gland cells secrete mucus to the exterior of the animal." [PMID:20865784]
is_a: PLANA:0000037 ! definitive tissue
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000486 xsd:string
[Term]
id: PLANA:0000487
name: acidophilic gland cell
def: "One of two distinct histochemical classes of gland cells, these can be found throughout the body but primarily form clusters of subepidermal marginal adhesive glands along the dorsalventral border of the animal." [PMID:20865784]
synonym: "eosinophilic gland cell" BROAD []
is_a: PLANA:0000485 ! gland cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000487 xsd:string
[Term]
id: PLANA:0000488
name: basophilic gland cell
def: "One of two distinct histochemical classes of gland cells, these are found near the ventral mesenchyme, the pharynx and in the dorsal region of the head. May also be called cyanophilic gland cells." [PMID:20865784]
is_a: PLANA:0000485 ! gland cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000488 xsd:string
[Term]
id: PLANA:0000489
name: anatomical line
def: "Non-material anatomical entity of one dimension, which forms a boundary of an anatomical surface or is a modulation of an anatomical surface." []
xref: AAO:0010267
xref: AEO:0000008
xref: BILA:0000008
xref: CARO:0000008
xref: EHDAA2:0003008
xref: FMA:9657
xref: HAO:0000008
xref: TAO:0001837
xref: TGMA:0001828
xref: UBERON:0006800
xref: XAO:0004003
xref: ZFA:0001689
is_a: PLANA:0000401 ! immaterial anatomical entity
property_value: http://purl.obolibrary.org/obo/inSubset "upper_level"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000489 xsd:string
[Term]
id: PLANA:0000490
name: anatomical plane
def: "A flat anatomical 2D surface that bisects an anatomical structure or an anatomical space." []
comment: All anatomical planes are fiat anatomical boundaries - no morphological boundary could ever be a perfect plane.
xref: CARO:0001013
xref: FMA:242982
xref: UBERON:0035085
is_a: PLANA:0000401 ! immaterial anatomical entity
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "fiat anatomical surface" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000490 xsd:string
[Term]
id: PLANA:0000491
name: plane of autotomy
def: "An anatomical plane that bisects a zone of weakness in an appendage. When autotomy occurs, the appendage divides along this plane." []
xref: UBERON:0035086
is_a: PLANA:0000490 ! anatomical plane
property_value: IAO:0000232 "this class is intended for autotomy that bisects an appendage. Other forms of autotomy are possible: for example, a sea cucumber and autotomitize internal organs" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000491 xsd:string
[Term]
id: PLANA:0000492
name: nerve plexus
def: "Anatomical junction where subdivisions of two or more neural trees interconnect with one another to form a network through which nerve fibers of the constituent nerve trees become regrouped; together with other nerve plexuses, nerves and ganglia, it constitutes the peripheral nervous system. Examples: cervical nerve plexus, brachial nerve plexus, sacral nerve plexus[FMA]." []
synonym: "plexus" BROAD []
xref: AEO:0000138
xref: BTO:0000205
xref: C12929
xref: EHDAA2:0003138
xref: EHDAA:3780
xref: FMA:5901
xref: http://en.wikipedia.org/wiki/Nervous_system_plexus
xref: http://linkedlifedata.com/resource/umls/id/C0501403
xref: http://www.snomedbrowser.com/Codes/Details/122455009
xref: MA:0002407
xref: UBERON:0001810
xref: UMLS:C0501403
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
property_value: http://purl.obolibrary.org/obo/inSubset "uberon_slim"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000492 xsd:string
property_value: UBPROP:0000012 "in FMA this is a subtype of junction rather than tissue" xsd:string
[Term]
id: PLANA:0000493
name: nervous system commissure
def: "Axon tract that crosses the midline of the central nervous system[NIF, modified]. In the context of Drosophila refers to a broad band of axons connecting equivalent neuropils each side of the brain[FBbt]." []
comment: *not* the same as FMA:76741 Commissure
synonym: "commissure" BROAD []
synonym: "commissure of neuraxis" EXACT []
synonym: "neuraxis commissure" EXACT []
xref: C32349
xref: FBbt:00005103
xref: FMA:83906
xref: http://en.wikipedia.org/wiki/Commissure
xref: http://linkedlifedata.com/resource/umls/id/C1185742
xref: nlx:110
xref: nlx_anat:20090513
xref: OpenCyc:Mx4rdBrmE6gOEdudWQACs5b6Bw
xref: TADS:0000201
xref: UBERON:0001020
xref: UMLS:C1185742
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
property_value: http://purl.obolibrary.org/obo/hasNarrowSynonym "white matter commissure" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "cumbo"
property_value: http://purl.obolibrary.org/obo/inSubset "uberon_slim"
property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall
property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/mellybelly
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000493 xsd:string
property_value: UBPROP:0000001 "White matter fiber bundle that crosses the midline of the brain or spinal cord, that connects similar structures on both sides. (CUMBO; Heimer, L. The Human Brain, 2nd ed., 1995, pg 6)" xsd:string
property_value: UBPROP:0000007 "commissural" xsd:string
[Term]
id: PLANA:0000494
name: brain commissure
def: "any of the nerve fiber tracts that span the longitudinal fissure between the cerebral and/or cerebellar hemispheres of the brain" []
xref: UBERON:0005970
is_a: PLANA:0000493 ! nervous system commissure
relationship: BFO:0000050 PLANA:0007537 ! part of brain
property_value: http://purl.obolibrary.org/obo/inSubset "pheno_slim"
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000494 xsd:string
property_value: UBPROP:0000001 "any of the nerve fiber tracts that span the longitudinal fissure between the cerebral and/or cerebellar hemispheres of the brain[MP]" xsd:string
[Term]
id: PLANA:0000495
name: blastema
def: "A regenerating tissue composed of a proliferative mass of undifferentiated progenitor cells from which new differentiated structures arise" []
synonym: "blastema cell" EXACT []
xref: AEO:0000192
xref: BTO:0001638
xref: CARO:0000010
xref: EFO:0003658
xref: FMA:50705
xref: ncithesaurus:Blastemal_Cell
xref: TAO:0001270
xref: UBERON:0005306
xref: XAO:0004060
is_a: PLANA:0000432 ! regenerating anatomical structure
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000495 xsd:string
[Term]
id: PLANA:0000496
name: anatomical boundary
def: "A non-material anatomical entity of two dimensions. Anatomical boundaries are contiguous structures." []
xref: UBERON:0000015
is_a: PLANA:0000401 ! immaterial anatomical entity
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000496 xsd:string
[Term]
id: PLANA:0000497
name: anatomical junction
def: "An anatomical structure that connects two structures" []
synonym: "anatomical junction" EXACT []
synonym: "junction" BROAD []
xref: FMA:5898
xref: http://www.snomedbrowser.com/Codes/Details/91833003
xref: UBERON:0007651
is_a: PLANA:0000401 ! immaterial anatomical entity
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000497 xsd:string
[Term]
id: PLANA:0000498
name: main body axis
def: "A principle subdivision of an organism that includes all structures along the primary axis, typically the anterior-posterior axis, from head to tail, including structures of the body proper where present (for example, ribs), but excluding appendages." []
comment: Depiction shows an asexual with the term annoated in yellow. Scale bar =500um
synonym: "anteroposterior axis" BROAD []
xref: UBERON:0013701
is_a: BSPO:0000010 ! anatomical axis
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/mainbodyaxis.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000498 xsd:string
[Term]
id: PLANA:0000499
name: cell
def: "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." []
comment: The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one).
xref: CALOHA:TS-2035
xref: FMA:68646
xref: GO:0005623
xref: KUPO:0000002
xref: VHOG:0001533
xref: WBbt:0004017
xref: XAO:0003012
is_a: PLANA:0000129 ! anatomical structure
property_value: http://purl.obolibrary.org/obo/inSubset ubprop:upper_level
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000499 xsd:string
[Term]
id: PLANA:0000500
name: cell part
def: "Anatomical structure that is a direct part of the cell." []
xref: AAO:0010271
xref: BILA:0000014
xref: C34070
xref: CARO:0000014
xref: FBbt:00007012
xref: FMA:86454
xref: GO:0044464
xref: HAO:0000014
xref: http://linkedlifedata.com/resource/umls/id/C1178969
xref: NIF_Subcellular:sao-1337158144
xref: OpenCyc:Mx4rwQwkcZwpEbGdrcN5Y29ycA
xref: TGMA:0001834
xref: UBERON:0000470
xref: UMLS:C1178969
is_a: PLANA:0000129 ! anatomical structure
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "cell component" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "upper_level"
property_value: IAO:0000116 "TODO - move metadata to GO and obsolete this class once homes have been found for existing children. Note the inconsistency between the usage of the label 'cell component' in GO and CARO" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000500 xsd:string
[Term]
id: PLANA:0000501
name: cell projection
def: "A prolongation or process extending from a cell." []
xref: GO_0042995
is_a: PLANA:0000433 ! cellular component
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000501 xsd:string
[Term]
id: PLANA:0000502
name: actin-based cell projection
def: "A cell projection supported by an assembly of actin filaments." []
xref: GO_0098858
is_a: PLANA:0000501 ! cell projection
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000502 xsd:string
[Term]
id: PLANA:0000503
name: cilium
def: "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body." []
xref: GO_0005929
is_a: PLANA:0000501 ! cell projection
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000503 xsd:string
[Term]
id: PLANA:0000504
name: microvillus
def: "Thin cylindrical membrane-covered projections on the surface of an animal cell containing a core bundle of actin filaments." []
xref: GO:0005902
is_a: PLANA:0000501 ! cell projection
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000504 xsd:string
[Term]
id: PLANA:0000505
name: cell-cell contact zone
def: "Extended zone of intimate apposition between two cells containing one or more types of intercellular junctions." []
xref: GO_0044291
is_a: PLANA:0000433 ! cellular component
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000505 xsd:string
[Term]
id: PLANA:0000506
name: cell junction
def: "A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix." []
xref: GO:0030054
is_a: PLANA:0000505 ! cell-cell contact zone
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000506 xsd:string
[Term]
id: PLANA:0000507
name: cell-cell junction
def: "A cell junction that forms a connection between two or more cells in a multicellular organism; excludes direct cytoplasmic junctions such as ring canals." []
xref: GO:0005911
is_a: PLANA:0000506 ! cell junction
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000507 xsd:string
[Term]
id: PLANA:0000508
name: cell-cell adhesion
def: "The attachment of one cell to another cell via adhesion molecules." []
xref: GO:0098609
is_a: PLANA:0000505 ! cell-cell contact zone
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000508 xsd:string
[Term]
id: PLANA:0000509
name: intracellular part
def: "Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." []
xref: GO:0044424
is_a: PLANA:0000433 ! cellular component
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000509 xsd:string
[Term]
id: PLANA:0000510
name: cytoplasm
def: "All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures" []
xref: GO:0005737
is_a: PLANA:0000433 ! cellular component
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000510 xsd:string
[Term]
id: PLANA:0000511
name: acidophilic cytoplasm
def: "Cytoplasm that exhibits molecular interaction for acidic dyes under specific pH conditions." []
xref: CP_0000027
is_a: PLANA:0000510 ! cytoplasm
property_value: http://purl.obolibrary.org/obo/hasNarrowSynonym "eosinophilic" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000511 xsd:string
created_by: tmeehan
creation_date: 2009-12-22T04:23:25Z
[Term]
id: PLANA:0000512
name: basophilic cytoplasm
def: "Cytoplasm that exhibits molecular interaction for basic dyes under specific pH conditions." []
xref: CP_0000028
is_a: PLANA:0000510 ! cytoplasm
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000512 xsd:string
created_by: tmeehan
creation_date: 2009-12-22T04:24:54Z
[Term]
id: PLANA:0000513
name: cytoplasmic part
def: "Any constituent part of the cytoplasm, all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." []
xref: GO_0044444
is_a: PLANA:0000510 ! cytoplasm
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000513 xsd:string
[Term]
id: PLANA:0000514
name: cytoplasmic vesicle part
def: "Any constituent part of cytoplasmic vesicle, a vesicle formed of membrane or protein, found in the cytoplasm of a cell." []
xref: GO:0044433
is_a: PLANA:0000513 ! cytoplasmic part
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000514 xsd:string
[Term]
id: PLANA:0000515
name: vacuole
def: "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol." []
xref: GO:0005773
is_a: PLANA:0000513 ! cytoplasmic part
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000515 xsd:string
[Term]
id: PLANA:0000516
name: cytoskeleton organization
def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures." []
xref: GO_0007010
is_a: PLANA:0000513 ! cytoplasmic part
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000516 xsd:string
[Term]
id: PLANA:0000518
name: intracellular organelle
def: "Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." []
xref: GO_0043229
is_a: PLANA:0000509 ! intracellular part
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000518 xsd:string
[Term]
id: PLANA:0000519
name: intracellular non-membrane-bounded organelle
def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes, the cytoskeleton and chromosomes" []
xref: GO_0043232
is_a: PLANA:0000518 ! intracellular organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000519 xsd:string
[Term]
id: PLANA:0000520
name: membrane
def: "A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it." []
xref: GO_0016020
is_a: PLANA:0000433 ! cellular component
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000520 xsd:string
[Term]
id: PLANA:0000521
name: bounding membrane of organelle
def: "Examples include the outer membranes of double membrane bound organelles such as mitochondria as well as the bounding membranes of single-membrane bound organelles such as lysosomes." []
xref: GO_0098588
is_a: PLANA:0000520 ! membrane
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000521 xsd:string
[Term]
id: PLANA:0000522
name: membrane part
def: "Any constituent part of a membrane, a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins." []
xref: GO_0044425
is_a: PLANA:0000520 ! membrane
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000522 xsd:string
[Term]
id: PLANA:0000523
name: plasma membrane part
def: "Any constituent part of the plasma membrane, the membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." []
xref: GO_0044459
is_a: PLANA:0007509 ! plasma membrane
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000523 xsd:string
[Term]
id: PLANA:0000524
name: organelle membrane
def: "A membrane that is one of the two lipid bilayers of an organelle envelope or the outermost membrane of single membrane bound organelle." []
xref: GO_0031090
is_a: PLANA:0000520 ! membrane
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000524 xsd:string
[Term]
id: PLANA:0000525
name: organelle
def: "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane." []
xref: GO_0043226
is_a: PLANA:0000433 ! cellular component
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000525 xsd:string
[Term]
id: PLANA:0000526
name: membrane-bounded organelle
def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." []
xref: GO:0043227
is_a: PLANA:0000525 ! organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000526 xsd:string
[Term]
id: PLANA:0000527
name: intracellular membrane-bounded organelle
def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." []
xref: GO_0043231
is_a: PLANA:0000518 ! intracellular organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000527 xsd:string
[Term]
id: PLANA:0000528
name: Golgi apparatus
def: "A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions." []
xref: GO_0005794
is_a: PLANA:0000526 ! membrane-bounded organelle
is_a: PLANA:0000527 ! intracellular membrane-bounded organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000528 xsd:string
[Term]
id: PLANA:0000529
name: nucleus
def: "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." []
xref: GO_0005634
is_a: PLANA:0000526 ! membrane-bounded organelle
is_a: PLANA:0000527 ! intracellular membrane-bounded organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000529 xsd:string
[Term]
id: PLANA:0000530
name: secretory vesicle
def: "A cytoplasmic, membrane bound vesicle that is capable of fusing to the plasma membrane to release its contents into the extracellular space." []
xref: GO_0099503
is_a: PLANA:0000526 ! membrane-bounded organelle
is_a: PLANA:0000527 ! intracellular membrane-bounded organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000530 xsd:string
[Term]
id: PLANA:0000531
name: non-membrane-bounded organelle
def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes." []
xref: GO_0043228
is_a: PLANA:0000525 ! organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000531 xsd:string
[Term]
id: PLANA:0000532
name: nuclear part
def: "Any constituent part of the nucleus, a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated." []
xref: GO_0044428
is_a: PLANA:0000529 ! nucleus
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000532 xsd:string
[Term]
id: PLANA:0000533
name: nucleolus
def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." []
xref: GO_0005730
is_a: PLANA:0000532 ! nuclear part
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000533 xsd:string
[Term]
id: PLANA:0000534
name: chromatin
def: "The ordered and organized complex of DNA, protein (histones), and sometimes RNA, that forms the chromosome." []
xref: GO_0000785
is_a: PLANA:0000532 ! nuclear part
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000534 xsd:string
[Term]
id: PLANA:0000535
name: heterochromatin
def: "A compact and highly condensed form of chromatin." []
xref: GO_0000792
is_a: PLANA:0000534 ! chromatin
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000535 xsd:string
[Term]
id: PLANA:0000536
name: euchromatin
def: "A dispersed and relatively uncompacted form of chromatin." []
xref: GO_0000791
is_a: PLANA:0000534 ! chromatin
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000536 xsd:string
[Term]
id: PLANA:0000537
name: ribosome
def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." []
xref: GO_0005840
is_a: PLANA:0000519 ! intracellular non-membrane-bounded organelle
is_a: PLANA:0000531 ! non-membrane-bounded organelle
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000537 xsd:string
[Term]
id: PLANA:0000538
name: axon tract
def: "A group of axons linking two or more neuropils and having a common origin, termination" []
xref: UBERON:0001018
is_a: PLANA:0000501 ! cell projection
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000538 xsd:string
[Term]
id: PLANA:0000539
name: electrically responsive cell
def: "A cell whose function is determined by its response to an electric signal." []
xref: CL:0000393
is_a: PLANA:0000119 ! terminally differentiated cell
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000539 xsd:string
[Term]
id: PLANA:0000540
name: electrically signaling cell
def: "A cell that initiates an electrical signal and passes that signal to another cell." []
xref: CL:0000404
is_a: PLANA:0000119 ! terminally differentiated cell
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000540 xsd:string
[Term]
id: PLANA:0000541
name: nerve
def: "An enclosed, cable-like bundle of axons in the peripheral nervous system originating in a nerve root in the central nervous system (or a condensed nervous structure) connecting with peripheral structures." []
synonym: "nerves" EXACT []
synonym: "peripheral nerve" EXACT []
xref: UBERON:0001021
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "neural subtree" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000541 xsd:string
[Term]
id: PLANA:0000543
name: neuron projection bundle
def: "A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses." []
xref: CARO:0001001
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000470 ! part of neuropil
relationship: BFO:0000050 PLANA:0000564 ! part of peripheral nervous system neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000543 xsd:string
[Term]
id: PLANA:0000545
name: afferent neuron
def: "A neuron which conveys sensory information centrally from the periphery." []
synonym: "input neuron" EXACT []
xref: CL:0000526
xref: FMA:87653
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000545 xsd:string
[Term]
id: PLANA:0000546
name: bipolar neuron
def: "A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body." []
xref: CL:0000103
xref: FMA:67282
is_a: PLANA:0000550 ! interneuron
relationship: BFO:0000050 PLANA:0000466 ! part of subepidermal nerve plexus
relationship: BFO:0000050 PLANA:0000467 ! part of submuscular nerve plexus
relationship: BFO:0000050 PLANA:0007548 ! part of transverse commissure
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000546 xsd:string
[Term]
id: PLANA:0000547
name: commissural neuron
def: "A neuron that has an axon which crosses the midline." []
xref: CL:0000678
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000097 ! part of ventral nerve cord
relationship: BFO:0000050 PLANA:0000459 ! part of optic chiasma
relationship: BFO:0000050 PLANA:0000460 ! part of anterior commissure
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000547 xsd:string
[Term]
id: PLANA:0000548
name: efferent neuron
def: "A neuron which sends impulses peripherally to activate muscles or secretory cells." []
synonym: "output neuron" EXACT []
xref: CL:0000527
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000548 xsd:string
[Term]
id: PLANA:0000549
name: excitatory motor neuron
def: "A motor neuron that is capable of directly inducing muscle contraction." []
comment: In vertebrates, all motor neurons are excitatory, but various types of inhibitory motor neurons exist in invertebrates.
xref: CL:0008014
is_a: PLANA:0000553 ! motor neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000549 xsd:string
[Term]
id: PLANA:0000550
name: interneuron
def: "Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions." []
xref: BTO:0003811
xref: CL:0000099
xref: FBbt:00005125
xref: FMA:67313
xref: WBbt:0005113
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: BFO:0000050 PLANA:0000465 ! part of pharynx nerve plexus
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000550 xsd:string
[Term]
id: PLANA:0000552
name: sensory neuron
def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." []
xref: BTO:0001037
xref: CL:0000101
xref: FBbt:00005124
xref: FMA:84649
xref: WBbt:0005759
is_a: PLANA:0000462 ! sensory cell
is_a: PLANA:0000545 ! afferent neuron
is_a: PLANA:0000546 ! bipolar neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000552 xsd:string
[Term]
id: PLANA:0000553
name: motor neuron
def: "An efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes or inhibits movement." []
synonym: "motoneuron" EXACT []
xref: BTO:0000312
xref: CL:0000100
xref: FMA:83617
xref: WBbt:0005409
is_a: PLANA:0000548 ! efferent neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000553 xsd:string
[Term]
id: PLANA:0000556
name: neurosecretory neuron
def: "Neuronal cells which synthesize, store and release neurohormones." []
xref: CL:0000381
xref: FBbt:00005130
is_a: PLANA:0000099 ! neuron
is_a: PLANA:0000105 ! secretory cell
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000556 xsd:string
[Term]
id: PLANA:0000558
name: sympathetic neuron
def: "Sympathetic neurons are part of the sympathetic nervous system and are primarily adrenergic producing the neurotransmitter noradrenalin along with other neuropeptides." []
xref: CL:0011103
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000558 xsd:string
[Term]
id: PLANA:0000559
name: unipolar neuron
def: "Neuron with one neurite that extends from the cell body." [PMID:18499291]
xref: CL:0000106
xref: FMA:67278
is_a: PLANA:0000552 ! sensory neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000559 xsd:string
[Term]
id: PLANA:0000560
name: multipolar neuron
def: "Neuron with an axon and two or more dendrites." [PMID:18499291]
xref: CL:0000104
xref: FMA:67287
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: BFO:0000050 PLANA:0000466 ! part of subepidermal nerve plexus
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000560 xsd:string
[Term]
id: PLANA:0000561
name: neuron associated cell (sensu Nematoda and Protostomia)
def: "Cells that are in close proximity to neurons." []
xref: CL:0000130
is_a: PLANA:0000119 ! terminally differentiated cell
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000561 xsd:string
[Term]
id: PLANA:0000562
name: central nervous system neuron
def: "Any neuron that is part of a central nervous system." []
xref: CL:2000029
is_a: PLANA:0000099 ! neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000562 xsd:string
created_by: TermGenie
creation_date: 2014-06-25T01:17:43Z
[Term]
id: PLANA:0000564
name: peripheral nervous system neuron
def: "Any neuron that is part of a peripheral nervous system." []
xref: CL:2000032
is_a: PLANA:0000099 ! neuron
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000564 xsd:string
created_by: TermGenie
creation_date: 2014-06-25T02:28:17Z
[Term]
id: PLANA:0000565
name: autonomic neuron
def: "A neruon whose cell body is within an autonomic ganglion." []
xref: CL:0000107
xref: FMA:80121
is_a: PLANA:0000564 ! peripheral nervous system neuron
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000565 xsd:string
[Term]
id: PLANA:0000566
name: enteric neuron
def: "Neuron that is part of the enteric nervous system." []
xref: CL:0007011
is_a: PLANA:0000565 ! autonomic neuron
relationship: BFO:0000050 PLANA:0000465 ! part of pharynx nerve plexus
relationship: BFO:0000050 PLANA:0000468 ! part of gastrodermal plexus
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007560 ! contained in gastrovascular compartment
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0000566 xsd:string
created_by: haendel
creation_date: 2012-06-28T08:20:31Z
[Term]
id: PLANA:0001005
name: basal lamina of epithelium
def: "Acellular anatomical structure that consists of a thin sheet of fibrous proteins that underlie and support the cells of an epithelium. It separates the cells of an epithelium from any underlying tissue." []
comment: Depicted by field is an electron micrograph of the dorsal epidermis in a transverse plane from an asexual adult animal. The basal lamina is noted with a magenta bracket. Scale bar is 5um.
synonym: "basal lamina of connective tissue" EXACT []
xref: AAO:0010269
xref: AEO:0000065
xref: Basal:lamina
xref: BILA:0000065
xref: C32186
xref: CARO:0000065
xref: EHDAA2:0003065
xref: FMA:62918
xref: HAO:0000065
xref: http://linkedlifedata.com/resource/umls/id/C0085872
xref: MESH:D001485
xref: NIF_Subcellular:sao1397492660
xref: TAO:0001485
xref: TGMA:0001850
xref: UMLS:C0085872
xref: VHOG:0001592
xref: WBbt:0005756
xref: XAO:0003163
xref: ZFA:0001485
is_a: PLANA:0000426 ! acellular anatomical structure
relationship: BFO:0000050 PLANA:0004529 ! part of integumental system
relationship: BSPO:0001107 PLANA:0000054 ! immediately_deep_to dorsal epidermis
relationship: BSPO:0001107 PLANA:0000096 ! immediately_deep_to ventral epidermis
relationship: BSPO:0015014 PLANA:0000240 ! immediately_superficial_to body wall musculature
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "basal lamina" xsd:string
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "basal laminae" xsd:string
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "lamina basalis" xsd:string
property_value: http://purl.obolibrary.org/obo/inSubset "uberon_slim"
property_value: http://purl.obolibrary.org/obo/inSubset "vertebrate_core"
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/basallaminaofepithelium.png
property_value: IAO:0000232 "this class represents a continuous sheet of basal lamina which can underlie multiple epithelial cells over large regions. In contrast, the GO class 'basal lamina' represents a portion of substance on the scale of a single cell." xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0001005 xsd:string
property_value: UBPROP:0000003 "A basal lamina is certainly present in Bilateria and was evaluated as an autapomorphy of this taxon.[well established][VHOG]" xsd:string
[Term]
id: PLANA:0004503
name: sexually mature adult
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "A fully formed, sexually mature organism. The sexually reproducing Schmidtea mediterranea biotype exists as an obligate cross-fertilizing hermaphrodite." [PMID:19022767\nPMID\:11972158]
comment: Depcited by field shows a light microscopy image of a sexually mature adult with a scale bar of 2 mm.
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/sexuallymatureadult.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004503 xsd:string
created_by: Erin Davies
creation_date: 2017-04-24T02:52:06Z
[Term]
id: PLANA:0004504
name: asexual adult
namespace: Schmidtea_mediterranea_Developmental_Stages
def: "The asexually reproducing Schmidtea mediterranea biotype exists as a constitutive adult, undergoing successive cycles of fission and whole animal regeneration. Asexual Schmidtea mediterranea contain primordial germ cells, but do not possess a reproductive system." [PMID:11972158\nPMID\:17376870]
comment: Depicted by field shows an asexual adult with a scale bar of 500um
is_a: PLANA:0000040 ! Schmidtea mediterranea developmental stage
relationship: PLANA:0007536 PLANA:0000024 ! specific_to Smed asexual biotype
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/asexualadult.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004504 xsd:string
created_by: Erin Davies
creation_date: 2017-04-24T02:59:06Z
[Term]
id: PLANA:0004506
name: testis somatic gonadal cell
def: "dmd-1+ expressing somatic cells within the testis that promote male GSC maintenance. dmd-1+, ophis-1+ somatic gonadal cells ensheath germ cells via long cytoplasmic processes and promote differentiation." [PMID:23652002, PMID:27163480]
is_a: PLANA:0000119 ! terminally differentiated cell
relationship: BFO:0000050 PLANA:0000208 ! part of testis
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004506 xsd:string
created_by: Erin Davies
creation_date: 2017-07-19T21:05:52Z
[Term]
id: PLANA:0004507
name: ovarian somatic gonadal cell
def: "ophis+ somatic cells (gh4-, nanos-) in the ovary that may provide trophic support to female germline stem cells and differentiating oogonia." [PMID:27163480]
is_a: PLANA:0000119 ! terminally differentiated cell
relationship: BFO:0000050 PLANA:0000204 ! part of ovary
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004507 xsd:string
created_by: Erin Davies
creation_date: 2017-07-19T21:35:08Z
[Term]
id: PLANA:0004511
name: oral-aboral axis
def: "Axis that runs from the oral pole and to the aboral pole of the spherical embryo (Stage 3 through early Stage 6). The oral pole is centered around the temporary embryonic pharynx; the aboral pole is located opposite the temporary embryonic pharynx." [PMID:28072387]
comment: Depicted by is an illustration noting the oral-aboral axis in cyan double headed arrow. Note it starts at the temporary embryonic pharynx and extends to opposite.
is_a: BSPO:0000010 ! anatomical axis
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/oralaboralaxis.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004511 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T14:55:23Z
[Term]
id: PLANA:0004512
name: primitive ectoderm surface
def: "The apical surface of the single layered primitive ectoderm that is in contact with the environment." [https://github.com/obophenotype/planaria-ontology/blob/master/metadata/planarefs/planaref-0000001.md, OCLC:20423827, OCLC:464776945, OCLC:82522822, PMID:28072387]
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000029 ! part of primitive ectoderm
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004512 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T16:25:14Z
[Term]
id: PLANA:0004513
name: primtive gut cell surface
def: "The surface of the primitive gut cells in contact with the embryonic wall." [PMID:28072387]
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000085 ! part of primitive gut cell
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000005 ! existence ends during or before Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004513 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T16:25:35Z
[Term]
id: PLANA:0004514
name: embryonic gut cell surface
def: "The surface of phagocytic embryonic gut cells in contact with ingested yolk cells." [PMID:28072387]
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000059 ! part of embryonic gut cell
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000004 ! existence starts during or after Stage 4
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004514 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T16:25:45Z
[Term]
id: PLANA:0004516
name: temporary embryonic pharynx lumen epithelial surface
def: "The epithelial cell surface lining the temporary embryonic pharynx lumen." [PMID:20100474, PMID:28072387]
is_a: BSPO:0000005 ! anatomical surface
relationship: BFO:0000050 PLANA:0000023 ! part of temporary embryonic pharynx
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004516 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T16:26:16Z
[Term]
id: PLANA:0004517
name: blastomere
def: "An undifferentiated, cycling embryonic cell in Stage 1-5 embryos that expresses piwi-1, numerous adult asexual neoblast enriched genes, and early embryo enriched genes." [PMID:28072387]
is_a: PLANA:0000123 ! embryonic cell
relationship: BFO:0000050 PLANA:0000212 ! part of blastomere compartment
relationship: RO:0001018 PLANA:0000041 ! contained in aboral hemisphere
relationship: RO:0001018 PLANA:0000060 ! contained in embryonic wall
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000098 ! develops from zygote
relationship: RO:0002490 PLANA:0000001 ! existence overlaps Stage 1
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002496 PLANA:0000001 ! existence starts during or after Stage 1
relationship: RO:0002497 PLANA:0000005 ! existence ends during or before Stage 5
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004517 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T19:54:22Z
[Term]
id: PLANA:0004518
name: extraembryonic cell
def: "Post-mitotic, terminally differentiated cells which, give rise to temporary embryonic tissues." [PMID:28072387]
is_a: PLANA:0000119 ! terminally differentiated cell
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002496 PLANA:0000002 ! existence starts during or after Stage 2
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004518 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T20:00:04Z
[Term]
id: PLANA:0004519
name: temporary embryonic pharynx neuron
def: "A neuronal cell innervating the temporary embryonic pharynx. Four neurons innervate the radial muscle fibers that ring the oral opening." [PMID:28072387]
is_a: PLANA:0000099 ! neuron
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000023 ! part of temporary embryonic pharynx
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004519 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T20:01:15Z
[Term]
id: PLANA:0004520
name: temporary embryonic pharynx radial muscle cell
def: "Differentiated radial muscle cell present in the temporary embryonic pharynx." [PMID:16932928]
is_a: PLANA:0000101 ! muscle cell
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000023 ! part of temporary embryonic pharynx
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004520 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T20:01:39Z
[Term]
id: PLANA:0004521
name: temporary embryonic pharynx epithelial cell
def: "foxA1+ epithelial cell contained in the temporary embryonic pharynx." [PMID:20100474, PMID:28072387]
is_a: PLANA:0000100 ! epithelial cell
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000023 ! part of temporary embryonic pharynx
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004521 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T20:02:04Z
[Term]
id: PLANA:0004524
name: temporary embryonic pharynx circular muscle fiber
def: "Differentiated muscle cell present in a circular muscle fiber of the temporary embryonic pharynx." [PMID:16932928]
is_a: PLANA:0000101 ! muscle cell
is_a: PLANA:0004518 ! extraembryonic cell
relationship: BFO:0000050 PLANA:0000023 ! part of temporary embryonic pharynx
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002202 PLANA:0000212 ! develops from blastomere compartment
relationship: RO:0002490 PLANA:0000002 ! existence overlaps Stage 2
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004524 xsd:string
created_by: Erin Davies
creation_date: 2017-07-27T20:43:26Z
[Term]
id: PLANA:0004527
name: copulatory region
def: "Portion of the sexual biotype body plan immediately posterior to the parapharyngeal region, and immediately anterior to the tail. Encompasses the copulatory apparatus." [PMID:22074376]
comment: Depicted by field contains diagram representation of body region.
is_a: PLANA:0000102 ! anatomical compartment subdivision
relationship: BSPO:0000099 PLANA:0000420 ! posterior_to parapharyngeal region
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
relationship: subdivision_of PLANA:0007507 ! posterior compartment
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/copulatoryregion.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004527 xsd:string
created_by: Erin Davies
creation_date: 2017-08-28T18:20:43Z
[Term]
id: PLANA:0004528
name: pharyngeal epithelium
def: "Epithelia associated with the pharynx organ." []
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000016 ! part of definitive pharynx
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004528 xsd:string
created_by: Erin Davies
creation_date: 2017-08-31T14:53:38Z
[Term]
id: PLANA:0004529
name: integumental system
def: "Connected anatomical system that forms a barrier between an animal and its environment. In vertebrates, the integumental system consists of the epidermis, dermis plus associated glands and adnexa such as hair and scales. In invertebrates, the integumental system may include cuticle." []
xref: UBERON:0002416
is_a: PLANA:0000114 ! anatomical system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004529 xsd:string
created_by: Erin Davies
creation_date: 2017-08-31T19:21:09Z
[Term]
id: PLANA:0004530
name: oviduct lumen
def: "Anatomical space enclosed by the oviduct epithelium." [PMID:22074376]
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000205 ! part of oviduct
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004530 xsd:string
created_by: Erin Davies
creation_date: 2017-09-01T17:52:16Z
[Term]
id: PLANA:0004531
name: sperm duct lumen
def: "Anatomical space enclosed by the sperm duct epithelium." [PMID:19022767\nPMID\:22074376]
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000207 ! part of sperm duct
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004531 xsd:string
created_by: Erin Davies
creation_date: 2017-09-02T22:26:19Z
[Term]
id: PLANA:0004532
name: oviduct epithelium
def: "Ciliated epithelium lining the oviduct." [PMID:22074376]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000205 ! part of oviduct
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004532 xsd:string
created_by: Erin Davies
creation_date: 2017-09-02T22:35:10Z
[Term]
id: PLANA:0004533
name: sperm duct epithelium
def: "Ciliated epithelium lining the sperm duct." [PMID:19022767\nPMID\:22074376]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000207 ! part of sperm duct
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004533 xsd:string
created_by: Erin Davies
creation_date: 2017-09-02T22:43:04Z
[Term]
id: PLANA:0004534
name: tuba lumen
def: "Anatomical space enclosed by tuba. Oocyte(s) are fertilized in the tuba lumen by sperm that traveled up the oviduct." [PMID:19022767\nPMID\:20844018\nPMID\:22074376\nPMID\:27149082]
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000230 ! part of tuba
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0004534 xsd:string
created_by: Erin Davies
creation_date: 2017-09-02T22:55:44Z
[Term]
id: PLANA:0007501
name: transverse plane
def: "Anatomical plane which contains the midline and is perpendicular to the coronal and sagittal planes." []
is_a: PLANA:0000490 ! anatomical plane
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007501 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-26T19:31:44Z
[Term]
id: PLANA:0007502
name: coronal plane
def: "Anatomial plane which divides the body into ventral and dorsal regions. This plane always includes the midline and is also known as the frontal plane." []
comment: Depicted by field contains hematoxylin and eosin staining of a coronal plane section of a asexual adult animal. Scale bar = 250um
is_a: PLANA:0000490 ! anatomical plane
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/coronal.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007502 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-26T19:32:04Z
[Term]
id: PLANA:0007503
name: sagittal plane
def: "Anatomical plane which divides the body into right and left parts. This plane passes through the midline." []
is_a: PLANA:0000490 ! anatomical plane
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007503 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-26T19:32:33Z
[Term]
id: PLANA:0007504
name: dorsal compartment
def: "Three dimensional compartment along the dorsoventral axis that is above the anteroposterior axis, containing the eyes." []
xref: BSPO:0000089
xref: FBcv:0000035
xref: FBql:00005876
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007504 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-27T16:38:48Z
[Term]
id: PLANA:0007505
name: ventral compartment
def: "Compartment along the dorsoventral axis that is below the anteroposterior axis." []
xref: BSPO:0000091
xref: FBql:00005877
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007505 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-27T16:38:59Z
[Term]
id: PLANA:0007506
name: anterior compartment
def: "Compartment along the anteroposterior axis closer to the head rather than the tail, from the head margin to the esophagus." []
xref: BSPO:0000087
xref: FBql:00005874
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007506 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-27T16:39:34Z
[Term]
id: PLANA:0007507
name: posterior compartment
def: "Three dimensional compartment along the anteroposterior axis that is closer to the tail rather than the head, from the anterior boundary of the pharyngeal pouch to the tip of the tail." []
xref: BSPO:0000090
xref: FBcv:0000036
xref: FBql:00005875
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007507 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-04-27T16:39:59Z
[Term]
id: PLANA:0007508
name: extracellular component
def: "Anatomical structures that exist outside of cells; non-cellular." []
xref: WBbt:0005732
is_a: PLANA:0000500 ! cell part
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007508 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-03T13:48:26Z
[Term]
id: PLANA:0007509
name: plasma membrane
def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." []
xref: GO:0005886
is_a: PLANA:0007511 ! extracellular organelle
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007509 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-03T13:48:41Z
[Term]
id: PLANA:0007511
name: extracellular organelle
def: "Organized structure of distinctive morphology and function, occurring outside the cell. Includes, for example, extracellular membrane vesicles (EMVs) and the cellulosomes of anaerobic bacteria and fungi." []
xref: GO:0043230
is_a: PLANA:0007508 ! extracellular component
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007511 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-03T18:08:16Z
[Term]
id: PLANA:0007512
name: mitochondrion
def: "A spherical to rod shaped organelle that generates the majority of a cell's supply of ATP via cellular respiration. Mitochondria have their own genome and consist of outer and inner membranes, the latter folds inward to form cristae. This folding increases the surface area of the membrane and thus increases the space available to produce ATP. The inner and outer membranes are separated by an intermembrane space, and the inner membrane encloses the matrix." []
is_a: PLANA:0000526 ! membrane-bounded organelle
is_a: PLANA:0000527 ! intracellular membrane-bounded organelle
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007512 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-03T18:19:46Z
[Term]
id: PLANA:0007513
name: endoplasmic reticulum
def: "Network of interconnected, flattened, and/or tubular membrane, known as cisternae. This membrane is contiguous with the outer nuclear membrane. The endoplasmic reticulum is involved in both protein and lipid synthesis." []
is_a: PLANA:0000526 ! membrane-bounded organelle
is_a: PLANA:0000527 ! intracellular membrane-bounded organelle
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007513 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T14:46:22Z
[Term]
id: PLANA:0007514
name: rough endoplasmic reticulum
def: "Endoplasmic reticululum that is studded with ribosomes, leading to a \"rough\" or \"granular\" appearance." []
is_a: PLANA:0007513 ! endoplasmic reticulum
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007514 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T14:47:41Z
[Term]
id: PLANA:0007515
name: smooth endoplasmic reticulum
def: "Endoplamic reticulum that does not contain ribosomes, which synthesizes lipids, phospholipids, and steroids." []
is_a: PLANA:0007513 ! endoplasmic reticulum
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007515 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T14:48:11Z
[Term]
id: PLANA:0007516
name: nuclear pore
def: "Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined." []
xref: GO:0005643
is_a: PLANA:0000532 ! nuclear part
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007516 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T14:49:17Z
[Term]
id: PLANA:0007518
name: lysosome
def: "The digestive component of the cell. They are homogenous, dense, membrane bound organelles filled with acid hydrolases which break down polymers." [ISBN:0-71677033-4, PMID:4853064]
is_a: PLANA:0000526 ! membrane-bounded organelle
is_a: PLANA:0000527 ! intracellular membrane-bounded organelle
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007518 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T15:35:23Z
[Term]
id: PLANA:0007519
name: anteroposterior axis
def: "Axis that runs along the long axis of the animal from anterior (head) to posterior (tail). It is perpendicular to the dorsoventral axis and as such, it splits dorsal and ventral regions of the animal to either side." []
comment: Depiction shows an asexual with the term annoated in yellow. Scale bar =500um
is_a: BSPO:0000010 ! anatomical axis
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/anteroposterioraxis.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007519 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T17:59:38Z
[Term]
id: PLANA:0007520
name: dorsoventral axis
def: "Axis that runs along the short axis of the animal, perpendicular to the anteroposterior axis, running from the dorsal (back) side of the animal to the ventral (belly) side of the animal. This axis splits anterior and posterior regions of the animal to either side." []
is_a: BSPO:0000010 ! anatomical axis
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007520 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T18:00:07Z
[Term]
id: PLANA:0007521
name: dextro-sinister axis
def: "Axis perpendicular to both the anteroposterior and dorsoventral axis that runs from the left side of the animal, through the medial region (center) and out to the right side." []
comment: Depiction shows an asexual with the term annoated in yellow. Scale bar =500um
is_a: BSPO:0000010 ! anatomical axis
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/dextro-sinisteraxis.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007521 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T18:00:51Z
[Term]
id: PLANA:0007522
name: mediolateral axis
def: "Axis that runs from the center of the body, starting at the anteroposterior axis and out to the lateral (left, right, dorsal or ventral) surface of the animal." []
comment: Depiction shows an asexual with the term annoated in yellow. Scale bar =500um
is_a: BSPO:0000196 ! medial-external axis
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/mediolateralaxis.png
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007522 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T18:01:37Z
[Term]
id: PLANA:0007523
name: proximodistal axis
def: "Axis that starts at the distal part of an appendage, closest to the body, and runs to the proximal part of an appendage, farthest from the body." []
comment: Depicted by shows a planarian pharynx exposed by tricaine treatment. The proximodistal axis is denoted with the double headed magenta arrow.
is_a: BSPO:0000010 ! anatomical axis
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/proximodistalaxis.png {xref="PMID:24737865"}
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007523 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-04T18:02:04Z
[Term]
id: PLANA:0007524
name: anterior pole
def: "Distinct anterior cluster of muscle cells located at the midline which express notum, follistatin, zic-1, and foxD." [PMID:21566195, PMID:23297191, PMID:24040508, PMID:24415944, PMID:24704339, PMID:24992682]
is_a: PLANA:0000109 ! anatomical compartment subdivision feature
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0000418 ! head
relationship: subdivision_of PLANA:0007506 ! anterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007524 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-15T18:28:35Z
[Term]
id: PLANA:0007525
name: posterior pole
def: "Distinct posterior cluster of muscle cells located at the midline which express wnt1." [PMID:18063755] {comment="PMID:21680047"}
is_a: PLANA:0000109 ! anatomical compartment subdivision feature
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
relationship: subdivision_of PLANA:0007507 ! posterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007525 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-05-15T18:28:47Z
[Term]
id: PLANA:0007528
name: glial cell
def: "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu, guide neuronal migration during development, and exchange metabolites with neurons." [PMID:27612384]
xref: CL:0000125
is_a: PLANA:0000561 ! neuron associated cell (sensu Nematoda and Protostomia)
relationship: BFO:0000050 PLANA:0000470 ! part of neuropil
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007528 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-06-22T17:12:28Z
[Term]
id: PLANA:0007529
name: ganglion
def: "A biological tissue mass of nerve cell bodies." []
xref: UBERON:0000045
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000097 ! part of ventral nerve cord
relationship: BFO:0000050 PLANA:0007537 ! part of brain
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007529 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-06-22T18:29:52Z
[Term]
id: PLANA:0007534
name: inner pharyngeal epithelium
def: "Heavily ciliated epidermal cells covering the inner surface of the pharynx shaft." [doi:10.1002/jmor.1051550208\nOCLC\:16809160]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0004528 ! part of pharyngeal epithelium
relationship: BSPO:0015014 PLANA:0000474 ! immediately_superficial_to inner pharyngeal circular muscle fiber
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007534 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-07-24T19:28:03Z
[Term]
id: PLANA:0007535
name: pharyngeal circular muscle fiber
def: "Pharynx muscle fibers running parallel to the diameter of the pharynx." [ASIN:B000M4NK9M]
is_a: PLANA:0000101 ! muscle cell
relationship: BFO:0000050 PLANA:0000478 ! part of musculature of pharynx
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007535 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-07-24T19:39:14Z
[Term]
id: PLANA:0007537
name: brain
def: "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell." []
xref: UBERON:0000955
is_a: PLANA:0000431 ! organ
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000007 ! existence overlaps Stage 7
relationship: RO:0002490 PLANA:0000008 ! existence overlaps Stage 8
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007537 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-09-05T14:18:21Z
[Term]
id: PLANA:0007538
name: adhesion gland
def: "Specialized epithelial cells located along the dorsoventral margin. Adhesion glands are comprised of three cell types, the viscid and releasing gland cells which penetrate through an epithelial anchor cell and terminate at the epithelial surface." [OCLC:16809160\nPMID\:20865784]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000484 ! part of secretory system
relationship: RO:0001018 PLANA:0000043 ! contained in dorsoventral margin
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007538 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-09-05T14:32:51Z
[Term]
id: PLANA:0007539
name: anchor cell
def: "Specialized epithelial cell located along the dorsoventral margin that surrounds the viscid and releasing gland cells." [OCLC:16809160\nPMID\:20865784]
is_a: PLANA:0000487 ! acidophilic gland cell
relationship: BFO:0000050 PLANA:0007538 ! part of adhesion gland
relationship: RO:0001018 PLANA:0000043 ! contained in dorsoventral margin
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007539 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-09-05T15:08:27Z
[Term]
id: PLANA:0007540
name: viscid gland cell
def: "A specialized insunk epithelial cell that is part of the adhesion glands which is responsible for production and excretion of the viscid substance allowing adherence to a substrate." [OCLC:16809160\nPMID\:20865784]
is_a: PLANA:0000487 ! acidophilic gland cell
relationship: BFO:0000050 PLANA:0007538 ! part of adhesion gland
relationship: RO:0001018 PLANA:0000043 ! contained in dorsoventral margin
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007540 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-09-05T15:08:38Z
[Term]
id: PLANA:0007541
name: releasing gland cell
def: "Specialized insunk epithelial cell that is part of the adhesion gland which is responsible for production of releasing substance." [OCLC:16809160\nPMID\:20865784]
is_a: PLANA:0000487 ! acidophilic gland cell
relationship: BFO:0000050 PLANA:0007538 ! part of adhesion gland
relationship: RO:0001018 PLANA:0000043 ! contained in dorsoventral margin
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007545 ! contained in epidermal compartment
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007541 xsd:string
created_by: Steph Nowotarski
creation_date: 2017-09-05T15:08:48Z
[Term]
id: PLANA:0007543
name: TrpA+ central nervous system neuron
def: "A subset of TrpA+ neurons, located medially in the cephalic ganglia, whose formation is dependent on function of runt-1 and ap2." [] {comment="PMID:22549959"}
is_a: PLANA:0000562 ! central nervous system neuron
relationship: BFO:0000050 PLANA:0000044 ! part of cephalic ganglia
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
relationship: RO:0002202 PLANA:0007546 ! develops from TrpA+ neural progenitor cell
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007543 xsd:string
[Term]
id: PLANA:0007544
name: cintillo+ sensory neuron
def: "A subset of sensory neurons located along the dorsal head margin." [PMID:12557210]
is_a: PLANA:0000552 ! sensory neuron
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007544 xsd:string
[Term]
id: PLANA:0007545
name: epidermal compartment
def: "The outermost region of the deep-superficial axis. This anatomical compartment contains definitive epidermis, basal lamina and subepidermal nerve plexus." []
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007545 xsd:string
[Term]
id: PLANA:0007546
name: TrpA+ neural progenitor cell
def: "piwi-1+, runt-1+, ap2+ progenitor neoblasts required for production of TrpA+ neurons." [PMID:25254346] {comment="PMID:22549959"}
is_a: PLANA:0000012 ! neural progenitor
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007546 xsd:string
[Term]
id: PLANA:0007547
name: anterior pole progenitor cell
def: "piwi-1+, foxD+, prep+ progenitor neoblasts required for formation of the anterior pole." [PMID:24415944 ]
is_a: PLANA:0000120 ! progenitor cell
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007547 xsd:string
[Term]
id: PLANA:0007548
name: transverse commissure
def: "Axon tracts from ganglia that cross the midline, connecting the two ventral nerve cords." [PMID:17999079]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000097 ! part of ventral nerve cord
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007548 xsd:string
[Term]
id: PLANA:0007549
name: body wall musculature compartment
def: "An anatomical compartment of the deep-superficial axis containing the body wall musculature and underlying submuscular nerve plexus." []
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007549 xsd:string
[Term]
id: PLANA:0007550
name: serotonergic neural progenitor cell
def: "piwi-1+, lhx1/5-1+, pitx+ progenitor neoblasts required for specification of tph+ serotonergic neurons." [PMID:23903188, PMID:24131630, PMID:25254346]
is_a: PLANA:0000012 ! neural progenitor
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007550 xsd:string
[Term]
id: PLANA:0007551
name: klf+ sensory neuron progenitor cell
def: "piwi-1+, klf+ progenitor neoblasts required for production of cintillo+ sensory neurons." [PMID:25254346]
is_a: PLANA:0000012 ! neural progenitor
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007551 xsd:string
[Term]
id: PLANA:0007552
name: nu neoblast
def: "A population of piwi-2+, ston-2+, elav-2+, ptprd-9+ and msi-1+ progenitors that give rise to one or more neuronal (pc-2+, synapsin+) lineages." [PMID:27150006]
is_a: PLANA:0000012 ! neural progenitor
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007552 xsd:string
[Term]
id: PLANA:0007553
name: lateral nerve
def: "A nerve extending laterally from the ventral nerve cord that innervates the submuscular plexus." [PMID:17999079]
is_a: PLANA:0000037 ! definitive tissue
relationship: BFO:0000050 PLANA:0000080 ! part of peripheral nervous system
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007553 xsd:string
[Term]
id: PLANA:0007554
name: parenchymal compartment
def: "An anatomical compartment of the deep-superficial axis between the gastrodermal nerve plexus and submuscular nerve plexus." []
synonym: "mesenchyme" BROAD []
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007554 xsd:string
[Term]
id: PLANA:0007555
name: pax3/7+ neural progenitor cell
def: "piwi-1+, pax3/7+ progenitor neoblasts implicated in the production of DBH+ ventral midline neurons." [PMID: 25254346]
is_a: PLANA:0000012 ! neural progenitor
relationship: BFO:0000050 PLANA:0000103 ! part of central nervous system
relationship: BFO:0000050 PLANA:0000429 ! part of neoblast compartment
relationship: RO:0001018 PLANA:0000418 ! contained in head
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007554 ! contained in parenchymal compartment
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007555 xsd:string
[Term]
id: PLANA:0007556
name: temporary embryonic pharynx cavity
def: "Anatomical space enclosed by the temporary embryonic pharynx epithelial cells. Lumen through which yolk cells are transported into the embryonic gut cavity." [PMID:28072387]
is_a: PLANA:0000242 ! anatomical cavity
relationship: BFO:0000050 PLANA:0000023 ! part of temporary embryonic pharynx
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: PLANA:0007536 PLANA:0000116 ! specific_to embryo
relationship: RO:0001018 PLANA:0000076 ! contained in oral hemisphere
relationship: RO:0002490 PLANA:0000003 ! existence overlaps Stage 3
relationship: RO:0002490 PLANA:0000004 ! existence overlaps Stage 4
relationship: RO:0002490 PLANA:0000005 ! existence overlaps Stage 5
relationship: RO:0002490 PLANA:0000006 ! existence overlaps Stage 6
relationship: RO:0002496 PLANA:0000003 ! existence starts during or after Stage 3
relationship: RO:0002497 PLANA:0000006 ! existence ends during or before Stage 6
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007556 xsd:string
created_by: Erin Davies
[Term]
id: PLANA:0007557
name: testis nerve plexus
def: "Nerve plexus surrounding the testis." [PMID:7833618\nPMID\:17999079]
is_a: PLANA:0000492 ! nerve plexus
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0000420 ! contained in parapharyngeal region
relationship: RO:0001018 PLANA:0000421 ! contained in tail
relationship: RO:0001018 PLANA:0004527 ! contained in copulatory region
relationship: RO:0001018 PLANA:0007504 ! contained in dorsal compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0001018 PLANA:0007507 ! contained in posterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007557 xsd:string
[Term]
id: PLANA:0007558
name: fission plane
def: "Transverse anatomical plane, located approximately 1-2 mm from the posterior extremity of an adult animal, at which fission occurs." [OCLC:16809160, PMID:11972158]
is_a: PLANA:0000490 ! anatomical plane
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007558 xsd:string
created_by: Erin Davies
[Term]
id: PLANA:0007559
name: ovary nerve plexus
def: "Nerve plexus surrounding the ovary." [PMID:7833618\nPMID\:17999079]
is_a: PLANA:0000492 ! nerve plexus
relationship: BFO:0000050 PLANA:0000126 ! part of reproductive system
relationship: PLANA:0007536 PLANA:0000027 ! specific_to Smed sexual biotype
relationship: RO:0001018 PLANA:0000419 ! contained in prepharyngeal region
relationship: RO:0001018 PLANA:0007505 ! contained in ventral compartment
relationship: RO:0001018 PLANA:0007506 ! contained in anterior compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002496 PLANA:0000214 ! existence starts during or after juvenile
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007559 xsd:string
[Term]
id: PLANA:0007560
name: gastrovascular compartment
def: "The innermost anatomical compartment of the deep-superficial axis, extending from the definitive gut lumen to the gastrodermal nerve plexus." []
is_a: BSPO:0000086 ! anatomical compartment
relationship: RO:0002490 PLANA:0000214 ! existence overlaps juvenile
relationship: RO:0002490 PLANA:0004503 ! existence overlaps sexually mature adult
relationship: RO:0002490 PLANA:0004504 ! existence overlaps asexual adult
property_value: seeAlso https://planosphere.stowers.org/ontology/PLANA_0007560 xsd:string
[Term]
id: UBERON:0000000
name: processual entity
namespace: uberon
def: "An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity." [span:ProcessualEntity]
subset: upper_level
[Term]
id: UBERON:0000066
name: fully formed stage
namespace: uberon
def: "The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both sexually immature stage, and adult stage." [https://orcid.org/0000-0002-6601-2165]
subset: efo_slim
synonym: "adult stage" BROAD []
synonym: "fully formed animal stage" EXACT []
synonym: "juvenile-adult stage" EXACT []
xref: BilaDO:0000004
xref: BTO:0001043
xref: EFO:0001272
xref: FBdv:00005369
xref: WBls:0000041
xref: XtroDO:0000084
is_a: UBERON:0000105 ! life cycle stage
relationship: BFO:0000050 UBERON:0000092 ! part of post-embryonic stage
relationship: precedes UBERON:0000071 ! death stage
property_value: seeAlso https://github.com/obophenotype/uberon/issues/566
[Term]
id: UBERON:0000068
name: embryo stage
namespace: uberon
def: "A life cycle stage that starts with fertilization and ends with the fully formed embryo." [http://orcid.org/0000-0002-6601-2165]
synonym: "embryogenesis" RELATED []
synonym: "embryonic stage" EXACT []
xref: BilaDO:0000002
xref: EV:0300001
xref: FBdv:00005289
xref: FMA:72652
xref: HsapDv:0000002
xref: http://www.snomedbrowser.com/Codes/Details/296280003
xref: MmusDv:0000002
xref: OGES:000000
xref: OGES:000022
xref: WBls:0000003
xref: WBls:0000092
xref: WBls:0000102
xref: XAO:1000012
is_a: UBERON:0000105 ! life cycle stage
disjoint_from: UBERON:0000092 ! post-embryonic stage
relationship: precedes UBERON:0000066 ! fully formed stage
relationship: precedes UBERON:0000092 ! post-embryonic stage
[Term]
id: UBERON:0000071
name: death stage
namespace: uberon
def: "End of the life of an organism." [XAO:0000437]
synonym: "death" RELATED []
xref: XAO:0000437
xref: XtroDO:0000085
is_a: UBERON:0000105 ! life cycle stage
relationship: ends UBERON:0000104 ! life cycle
property_value: UBPROP:0000012 "ncit:Death is an outcome" xsd:string
[Term]
id: UBERON:0000092
name: post-embryonic stage
namespace: uberon
def: "stage succeeding embryo, including mature structure" [https://orcid.org/0000-0002-6601-2165]
synonym: "post-hatching stage" NARROW []
synonym: "postembryonic" RELATED []
synonym: "postembryonic stage" EXACT []
xref: BilaDO:0000003
xref: OGES:000010
xref: OGES:000014
xref: OGES:000024
xref: WBls:0000022
xref: WBls:0000093
xref: WBls:0000103
is_a: UBERON:0000105 ! life cycle stage
relationship: preceded_by UBERON:0000068 ! embryo stage
property_value: seeAlso https://github.com/obophenotype/uberon/issues/344
property_value: UBPROP:0000008 "In birds, the postnatal stage begins when the beak penetrates the shell (i.e., external pipping) (Brown et al. 1997)" xsd:string
[Term]
id: UBERON:0000104
name: life cycle
namespace: uberon
def: "An entire span of an organism's life, commencing with the zygote stage and ending in the death of the organism." [https://orcid.org/0000-0002-6601-2165]
subset: upper_level
synonym: "entire life cycle" EXACT []
synonym: "entire lifespan" EXACT []
synonym: "life" EXACT []
synonym: "lifespan" EXACT []
xref: FBdv:00000000
xref: HsapDv:0000001
xref: MmusDv:0000001
xref: ncithesaurus:Life
xref: OGES:000011
is_a: UBERON:0000000 ! processual entity
relationship: BFO:0000051 UBERON:0000105 ! has part life cycle stage
relationship: ends_with UBERON:0000071 ! death stage
relationship: starts_with UBERON:0000106 ! zygote stage
property_value: seeAlso https://github.com/obophenotype/uberon/issues/532
[Term]
id: UBERON:0000105
name: life cycle stage
namespace: uberon
def: "A spatiotemporal region encompassing some part of the life cycle of an organism." [https://orcid.org/0000-0002-6601-2165]
subset: efo_slim
subset: upper_level
synonym: "developmental stage" NARROW []
synonym: "stage" NARROW []
xref: BILS:0000105
xref: EFO:0000399
xref: FBdv:00007012
xref: FMA:24120
xref: HsapDv:0000000
xref: MmusDv:0000000
xref: ncithesaurus:Developmental_Stage
xref: OlatDv:0000010
xref: PdumDv:0000090
xref: WBls:0000002
xref: XAO:1000000
xref: ZFS:0000000
xref: ZFS:0100000
is_a: UBERON:0000000 ! processual entity
relationship: BFO:0000050 UBERON:0000104 ! part of life cycle
property_value: IAO:0000116 "this class represents a proper part of the life cycle of an organism. The class 'life cycle' should not be placed here" xsd:string
property_value: UBPROP:0000012 "the WBls class 'all stages' belongs here as it is the superclass of other WBls stages" xsd:string
property_value: UBPROP:0000012 "we map the ZFS unknown stage here as it is logically equivalent to saying *some* life cycle stage" xsd:string
[Term]
id: UBERON:0000106
name: zygote stage
namespace: uberon
def: "A stage at which the organism is a single cell produced by means of sexual reproduction." [http://en.wikipedia.org/wiki/Zygote]
subset: efo_slim
synonym: "1-cell stage" EXACT []
synonym: "fertilized egg stage" EXACT [BTO:0000854]
synonym: "fertilized egg stage" RELATED []
synonym: "one cell stage" EXACT []
synonym: "one-cell stage" RELATED [VHOG:0000745]
synonym: "zygote" RELATED [VHOG:0000745]
synonym: "zygotum" RELATED LATIN [http://en.wikipedia.org/wiki/Zygote]
xref: BilaDO:0000005
xref: BILS:0000106
xref: EFO:0001322
xref: EHDAA:27
xref: FBdv:00005288
xref: http://en.wikipedia.org/wiki/Zygote
xref: NCIT:C12601
xref: PdumDv:0000100
xref: VHOG:0000745
xref: XAO:1000001
xref: ZFS:0000001
is_a: UBERON:0000105 ! life cycle stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: starts UBERON:0000104 ! life cycle
property_value: seeAlso EMAPA:16033
property_value: UBPROP:0000003 "As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]" xsd:string
[Term]
id: UBERON:0000107
name: cleavage stage
namespace: uberon
def: "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." [GO:0040016, http://en.wikipedia.org/wiki/Cleavage_(embryo)]
subset: efo_slim
xref: BilaDO:0000006
xref: BILS:0000107
xref: Cleavage:(embryo)
xref: EFO:0001290
xref: FBdv:00000054
xref: MESH:A16.254.270
xref: MmusDv:0000004
xref: OGES:000015
xref: OGES:000020
xref: PdumDv:0000200
xref: XAO:1000004
xref: ZFS:0000046
is_a: UBERON:0000105 ! life cycle stage
relationship: BFO:0000050 UBERON:0000068 ! part of embryo stage
relationship: immediately_preceded_by UBERON:0000106 ! zygote stage
[Term]
id: hyman:vesicle
def: "PROG-2-5 positive granules that range in size from 0.5um to 1um present in epithelia and epithelia progenitor cells. These are distinct from rhabdites." [PMID:29100657]
comment: Depcited by is an immuno electron microscopy image of a mesenchymal cell labeled with anti-PROG-2-5 immuno-gold. Large rhod-shaped granules resembling rhabdites are found in the same cell labeled with PROG-2-5+ oval-shaped granules (pseudo-colored in blue). Higher magnification of the boxed region is shown in the panel below. e, endoplasmic reticulum; m, mitochondria; n, nucleus; rh, rhabdite. Scale bar, 1 μm.
is_a: PLANA:0000433 ! cellular component
property_value: http://xmlns.com/foaf/0.1/depiction http://purl.obolibrary.org/obo/plana/images/hymanvesicle.png {xref="PMID:29100657"}
created_by: Steph Nowotarski
creation_date: 2018-08-03T19:14:32Z
[Typedef]
id: :has_start_point
name: has_start_point
namespace: Planarian_Relationship
def: "A relation between an axis and a part of an organism, in which the part defines the initial point of the axis." [BSPO:cjm]
comment: Axes can be defined in a given species by subtyping the relevant axis type and stating a start and end point.
xref: \:has_start_point
xref: RO:0002220
domain: BSPO:0000010 ! anatomical axis
[Typedef]
id: BFO:0000050
name: part of
namespace: Planarian_Relationship
def: "a core relation that holds between a part and its whole" []
xref: BFO:0000050
property_value: http://purl.obolibrary.org/obo/shorthand "part_of" xsd:string
property_value: IAO:0000111 "is part of" xsd:string
property_value: IAO:0000112 "my brain is part of my body (continuant parthood, two material entities)" xsd:string
property_value: IAO:0000112 "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" xsd:string
property_value: IAO:0000112 "this day is part of this year (occurrent parthood)" xsd:string
property_value: IAO:0000116 "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." xsd:string
property_value: IAO:0000116 "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string
property_value: IAO:0000116 "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." xsd:string
property_value: IAO:0000118 "part_of" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: RO:0001900 RO:0001901
is_transitive: true
[Typedef]
id: BFO:0000051
name: has part
def: "a core relation that holds between a whole and its part" []
property_value: IAO:0000111 "has part" xsd:string
property_value: IAO:0000112 "my body has part my brain (continuant parthood, two material entities)" xsd:string
property_value: IAO:0000112 "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" xsd:string
property_value: IAO:0000112 "this year has part this day (occurrent parthood)" xsd:string
property_value: IAO:0000116 "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." xsd:string
property_value: IAO:0000116 "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string
property_value: IAO:0000116 "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." xsd:string
property_value: IAO:0000118 "has_part" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro/releases/2018-10-19/ro.owl xsd:string
property_value: RO:0001900 RO:0001901
[Typedef]
id: BSPO:0000096
name: anterior_to
namespace: Planarian_Relationship
def: "x anterior_to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail: bearer. This object Property is transitive and as such will be entailed." []
xref: BSPO:0000096
property_value: http://purl.obolibrary.org/obo/shorthand "anterior_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso FBcv:0000039
property_value: seeAlso FBql:00005863
is_transitive: true
inverse_of: BSPO:0000099 ! posterior_to
created_by: cjm
creation_date: 2009-07-31T02:15:46Z
[Typedef]
id: BSPO:0000097
name: distal_to
namespace: Planarian_Relationship
def: "x distal_to y iff x is further along the proximo-distal axis than y, towards the appendage tip. A proximo-distal axis extends from tip of an appendage (distal) to where it joins the body (proximal)." [BSPO:cjm]
xref: BSPO:0000097
property_value: http://purl.obolibrary.org/obo/shorthand "distal_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso FBcv:0000040
property_value: seeAlso FBql:00005867
is_transitive: true
inverse_of: BSPO:0000100 ! proximal_to
[Typedef]
id: BSPO:0000098
name: dorsal_to
namespace: Planarian_Relationship
def: "x dorsal_to y iff x is further along the dorso-ventral axis than y, towards the back. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." []
xref: BSPO:0000098
property_value: http://purl.obolibrary.org/obo/shorthand "dorsal_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso FBcv:0000041
property_value: seeAlso FBql:00005865
is_transitive: true
inverse_of: BSPO:0000102 ! ventral_to
[Typedef]
id: BSPO:0000099
name: posterior_to
namespace: Planarian_Relationship
def: "x posterior_to y iff x is further along the antero-posterior axis than y, towards the body/tail. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail. This object Property is transitive and as such will be entailed." []
synonym: "caudal_to" NARROW vertebrate []
xref: BSPO:0000099
property_value: http://purl.obolibrary.org/obo/hasNarrowSynonym "caudal_to" xsd:string
property_value: http://purl.obolibrary.org/obo/shorthand "posterior_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso FBcv:0000045
property_value: seeAlso FBql:00005864
is_transitive: true
[Typedef]
id: BSPO:0000100
name: proximal_to
namespace: Planarian_Relationship
def: "x proximal_to y iff x is closer to the point of attachment with the body than y." [BSPO:cjm]
comment: The elbow is proximal to the hand, but distal to the shoulder.
xref: BSPO:0000100
property_value: http://purl.obolibrary.org/obo/shorthand "proximal_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: seeAlso FBcv:0000047
property_value: seeAlso FBql:00005868
is_transitive: true
[Typedef]
id: BSPO:0000102
name: ventral_to
namespace: Planarian_Relationship
def: "x ventral_to y iff x is further along the dorso-ventral axis than y, towards the front. A dorso-ventral axis is an axis that extends through an organism from back (e.g. spinal column) to front (e.g. belly)." [BSPO:cjm]
xref: BSPO:0000102
property_value: seeAlso FBcv:0000049
property_value: seeAlso FBql:00005866
is_transitive: true
[Typedef]
id: BSPO:0000105
name: ipsilateral_to
namespace: Planarian_Relationship
def: "On the same side as. For example, the left arm is ipsilateral to the left leg." [BSPO:cjm]
xref: BSPO:0000105
property_value: seeAlso FBql:00005850
is_symmetric: true
is_a: BSPO:0000126 ! in_lateral_side_of
disjoint_from: BSPO:0000106 ! contralateral_to
[Typedef]
id: BSPO:0000106
name: contralateral_to
namespace: Planarian_Relationship
def: "On the opposite side from. For example, the left arm is contralateral to the right arm (and the right leg)." [BSPO:cjm]
xref: BSPO:0000106
property_value: seeAlso FBql:00005851
is_symmetric: true
is_a: BSPO:0000126 ! in_lateral_side_of
[Typedef]
id: BSPO:0000107
name: deep_to
namespace: Planarian_Relationship
def: "Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines." [BSPO:cjm]
xref: BSPO:0000107
is_transitive: true
inverse_of: BSPO:0000108 ! superficial_to
[Typedef]
id: BSPO:0000108
name: superficial_to
namespace: Planarian_Relationship
def: "Near the outer surface of the organism. Thus, skin is superficial to the muscle layer." [BSPO:cjm]
xref: BSPO:0000108
is_transitive: true
[Typedef]
id: BSPO:0000110
name: left_of
namespace: Planarian_Relationship
def: "Closer to the left side of the organism. Example: The dorsal fin is right of the left pectoral fin, but is left of the right eye. On the type level: X left_of Y <=> every instance x of X is left_of some instance y of Y, and there exists some organism o such that x part_of o and y part_of o." [BSPO:cjm]
xref: BSPO:0000110
is_transitive: true
inverse_of: BSPO:0000111 ! right_of
[Typedef]
id: BSPO:0000111
name: right_of
namespace: Planarian_Relationship
def: "Closer to the right side of the organism. Example: The dorsal fin is right of the left pectoral fin, but is left of the right eye. On the type level: X left_of Y <=> every instance x of X is right_of some instance y of Y, and there exists some organism o such that x part_of o and y part_of o." [BSPO:cjm]
xref: BSPO:0000111
is_transitive: true
[Typedef]
id: BSPO:0000113
name: opposite_to
namespace: Planarian_Relationship
def: "Direcly opposite to. i.e. on the opposite side through the axis." [BSPO:cjm]
xref: BSPO:0000113
is_a: BSPO:0000105 ! ipsilateral_to
[Typedef]
id: BSPO:0000120
name: in_left_side_of
namespace: Planarian_Relationship
def: "X in_left_side_of Y <=> if Y is subdivided into two left and right portions, X is part_of the left portion." [BSPO:PATO_mtg_2009]
xref: BSPO:0000120
is_a: BSPO:0000126 ! in_lateral_side_of
inverse_of: BSPO:0000121 ! in_right_side_of
[Typedef]
id: BSPO:0000121
name: in_right_side_of
namespace: Planarian_Relationship
def: "X in_right_side_of Y <=> if Y is subdivided into two left and right portions, X is part_of the right portion." [BSPO:PATO_mtg_2009]
xref: BSPO:0000121
is_a: BSPO:0000126 ! in_lateral_side_of
[Typedef]
id: BSPO:0000122
name: in_posterior_side_of
namespace: Planarian_Relationship
def: "X posterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the posterior portion." [BSPO:PATO_mtg_2009]
xref: BSPO:0000122
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0000123
name: in_anterior_side_of
namespace: Planarian_Relationship
def: "X anterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the anterior portion." [BSPO:PATO_mtg_2009]
xref: BSPO:0000123
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0000124
name: in_proximal_side_of
namespace: Planarian_Relationship
def: "x in_proximal_side_of y <=> if y is subdivided into two proximal and distal portions, y is part_of the proximal portion." [BSPO:PATO_mtg_2009]
xref: BSPO:0000124
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0000125
name: in_distal_side_of
namespace: Planarian_Relationship
def: "x in_distal_side_of y <=> if y is subdivided into two proximal and distal portions, y is part_of the distal portion." [BSPO:PATO_mtg_2009]
xref: BSPO:0000125
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0000126
name: in_lateral_side_of
namespace: Planarian_Relationship
def: "X in_lateral_side_of Y <=> if X is in_left_side_of Y or X is in_right_side_of Y. X is often, but not always a paired structure" [UBERON:cjm]
xref: BSPO:0000126
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0001100
name: in_superficial_part_of
namespace: Planarian_Relationship
def: "X superficial_part_of Y <=> if Y is subdivided into two superficial and deep portions, X is part_of the superficial portion." [BSPO:cjm]
xref: BSPO:0001100
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0001101
name: in_deep_part_of
namespace: Planarian_Relationship
def: "X superficial_part_of Y <=> if Y is subdivided into two superficial and deep portions, X is part_of the deep portion." [BSPO:cjm]
xref: BSPO:0001101
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0001106
name: proximalmost_part_of
namespace: Planarian_Relationship
def: "X proximalmost_part_of Y <=> X is in_proximal_side_of Y and X is adjacent_to the proximal boundary of Y" [https://orcid.org/0000-0002-6601-2165]
xref: BSPO:0001106
is_a: BSPO:0000124 ! in_proximal_side_of
[Typedef]
id: BSPO:0001107
name: immediately_deep_to
namespace: Planarian_Relationship
def: "x immediately_deep_to y iff x deep_to y and x is contiguous with y. This relation holds when both the deep_to and ajdacent_to relationship similarly hold." [BSPO:curators]
xref: BSPO:0001107
property_value: http://purl.obolibrary.org/obo/shorthand "immediately_deep_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: BSPO:0000107 ! deep_to
is_a: RO:0002220 ! adjacent to
inverse_of: BSPO:0015014 ! immediately_superficial_to
[Typedef]
id: BSPO:0001108
name: distalmost_part_of
namespace: Planarian_Relationship
def: "X distalmost_part_of Y <=> X is in_distal_side_of Y and X is adjacent_to the distal boundary of Y" [https://orcid.org/0000-0002-6601-2165]
xref: BSPO:0001108
property_value: http://purl.obolibrary.org/obo/shorthand "distalmost_part_of" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: BSPO:0000125 ! in_distal_side_of
[Typedef]
id: BSPO:0001113
name: preaxialmost_part_of
namespace: Planarian_Relationship
xref: BSPO:0001113
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0001114
name: postaxial_to
namespace: Planarian_Relationship
def: "x preaxial_to y iff x is further along the preaxial-postaxial axis than y, towards the postaxial side." [http://medical-dictionary.thefreedictionary.com/postaxial]
synonym: "posterior_to (developmentally)" RELATED [MA:th]
xref: BSPO:0001114
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "posterior_to (developmentally)" xsd:string
property_value: http://purl.obolibrary.org/obo/shorthand "postaxial_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_transitive: true
[Typedef]
id: BSPO:0001115
name: postaxialmost_part_of
namespace: Planarian_Relationship
xref: BSPO:0001115
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0005001
name: intersects_midsagittal_plane_of
namespace: Planarian_Relationship
def: "X intersects_median_plane of iff X crosses the midine plane of Y." []
xref: BSPO:0005001
is_a: BFO:0000050 ! part of
[Typedef]
id: BSPO:0015001
name: finishes_axis
namespace: Planarian_Relationship
comment: A directional axis can be divided by a plane. Following Allen Interval Algebra terminology we say that the side on which the axis initiates starts the axis, with the other side finishing the axis. If s finishes_axis x, and x has_end_point p, then x overlaps p
xref: BSPO:0015001
domain: BSPO:0000054 ! anatomical side
range: BSPO:0000010 ! anatomical axis
[Typedef]
id: BSPO:0015002
name: follows_axis
namespace: Planarian_Relationship
xref: BSPO:0015002
range: BSPO:0000010 ! anatomical axis
[Typedef]
id: BSPO:0015003
name: has_axis
namespace: Planarian_Relationship
xref: BSPO:0015003
[Typedef]
id: BSPO:0015004
name: has_end_point
namespace: Planarian_Relationship
def: "A relation between an axis and a part of an organism, in which the part defines the initial point of the axis." [BSPO:cjm]
comment: Axes can be defined in a given species by subtyping the relevant axis type and stating a end and end point
xref: BSPO:0015004
domain: BSPO:0000010 ! anatomical axis
[Typedef]
id: BSPO:0015005
name: orthogonal_to
namespace: Planarian_Relationship
def: "crossing at right angles" [BSPO:cjm]
xref: BSPO:0015005
domain: BSPO:0000010 ! anatomical axis
[Typedef]
id: BSPO:0015006
name: passes_through
namespace: Planarian_Relationship
def: "Intersects at two points." [BSPO:cjm]
xref: BSPO:0015006
domain: BSPO:0000010 ! anatomical axis
[Typedef]
id: BSPO:0015007
name: starts_axis
namespace: Planarian_Relationship
comment: A directional axis can be divided by a plane. Following Allen Interval Algebra terminology we say that the side on which the axis initiates starts the axis, with the other side finishing the axis. . If s starts_axis x, and x has_start_point p, then x overlaps p
xref: BSPO:0015007
domain: BSPO:0000054 ! anatomical side
range: BSPO:0000010 ! anatomical axis
[Typedef]
id: BSPO:0015008
name: surface_of
namespace: Planarian_Relationship
comment: placeholder. used for relation between anatomical surface and an anatomical side.
xref: BSPO:0015008
domain: BSPO:0000005 ! anatomical surface
[Typedef]
id: BSPO:0015009
name: immediately_anterior_to
namespace: Planarian_Relationship
def: "x immediately_anterior_to y iff x anterior_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015009
property_value: http://purl.obolibrary.org/obo/shorthand "immediately_anterior_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: BSPO:0000096 ! anterior_to
inverse_of: BSPO:0015012 ! immediately_posterior_to
[Typedef]
id: BSPO:0015010
name: immediately_distal_to
namespace: Planarian_Relationship
def: "x immediately_distal_to y iff x distal_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015010
is_a: BSPO:0000097 ! distal_to
inverse_of: BSPO:0015013 ! immediately_proximal_to
[Typedef]
id: BSPO:0015011
name: immediately_dorsal_to
namespace: Planarian_Relationship
def: "x immediately_dorsal_to y iff x dorsal_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015011
is_a: BSPO:0000098 ! dorsal_to
inverse_of: BSPO:0015015 ! immediately_ventral_to
[Typedef]
id: BSPO:0015012
name: immediately_posterior_to
namespace: Planarian_Relationship
def: "x immediately_posterior_to y iff x posterior_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015012
property_value: http://purl.obolibrary.org/obo/shorthand "immediately_posterior_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: BSPO:0000099 ! posterior_to
is_a: RO:0002220 ! adjacent to
[Typedef]
id: BSPO:0015013
name: immediately_proximal_to
namespace: Planarian_Relationship
def: "x immediately_proximal_to y iff x proximal_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015013
is_a: BSPO:0000100 ! proximal_to
[Typedef]
id: BSPO:0015014
name: immediately_superficial_to
namespace: Planarian_Relationship
def: "x immediately_superficial_to y iff x superficial_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015014
property_value: http://purl.obolibrary.org/obo/shorthand "immediately_superficial_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: BSPO:0000108 ! superficial_to
is_a: RO:0002220 ! adjacent to
[Typedef]
id: BSPO:0015015
name: immediately_ventral_to
namespace: Planarian_Relationship
def: "x immediately_ventral_to y iff x ventral_to y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015015
is_a: BSPO:0000102 ! ventral_to
[Typedef]
id: BSPO:0015016
name: immediately_left_of
namespace: Planarian_Relationship
def: "x immediately_left_of y iff x left_of y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015016
is_a: BSPO:0000110 ! left_of
inverse_of: BSPO:0015017 ! immediately_right_of
[Typedef]
id: BSPO:0015017
name: immediately_right_of
namespace: Planarian_Relationship
def: "x immediately_right_of y iff x right_of y and x is contiguous with y." [BSPO:curators]
xref: BSPO:0015017
is_a: BSPO:0000111 ! right_of
[Typedef]
id: BSPO:0015201
name: oral_to
namespace: Planarian_Relationship
def: "nearer to the oral opening of the organism, on the oral-aboral axis. This object Property is transitive and as such will be entailed." []
xref: BSPO:0015201
property_value: http://purl.obolibrary.org/obo/shorthand "oral_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_transitive: true
[Typedef]
id: BSPO:0015202
name: aboral_to
namespace: Planarian_Relationship
def: "nearer to the aboral opening of the organism, on the oral-aboral axis. This object Property is transitive and as such will be entailed." []
xref: BSPO:0015202
property_value: http://purl.obolibrary.org/obo/shorthand "aboral_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_transitive: true
[Typedef]
id: BSPO:1000000
name: preaxial_to
namespace: Planarian_Relationship
def: "x preaxial_to y iff x is further along the preaxial-postaxial axis than y, towards the front. This object Property is transitive and as such will be entailed." [http://medical-dictionary.thefreedictionary.com/preaxial]
synonym: "anterior_to (developmentally)" RELATED [MA:th]
synonym: "lateral (radial) to" RELATED []
synonym: "medial (tibial) to" RELATED []
xref: BSPO:1000000
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "anterior_to (developmentally)" xsd:string
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "lateral (radial) to" xsd:string
property_value: http://purl.obolibrary.org/obo/hasRelatedSynonym "medial (tibial) to" xsd:string
property_value: http://purl.obolibrary.org/obo/shorthand "preaxial_to" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_transitive: true
[Typedef]
id: PLANA:0007536
name: specific_to
namespace: Planarian_Relationship
def: "feature restricted to" []
property_value: altLabel "specific to" xsd:string
created_by: Steph Nowotarski
creation_date: 2017-07-24T20:21:09Z
[Typedef]
id: RO:0001018
name: contained in
namespace: Planarian_Relationship
property_value: http://purl.obolibrary.org/obo/inSubset "ro-eco"
property_value: IAO:0000111 "contained in" xsd:string
property_value: IAO:0000116 "Containment is location not involving parthood, and arises only where some immaterial continuant is involved." xsd:string
property_value: IAO:0000116 "Containment obtains in each case between material and immaterial continuants, for instance: lung contained_in thoracic cavity; bladder contained_in pelvic cavity. Hence containment is not a transitive relation. If c part_of c1 at t then we have also, by our definition and by the axioms of mereology applied to spatial regions, c located_in c1 at t. Thus, many examples of instance-level location relations for continuants are in fact cases of instance-level parthood. For material continuants location and parthood coincide. Containment is location not involving parthood, and arises only where some immaterial continuant is involved. To understand this relation, we first define overlap for continuants as follows: c1 overlap c2 at t =def for some c, c part_of c1 at t and c part_of c2 at t. The containment relation on the instance level can then be defined (see definition):" xsd:string
property_value: IAO:0000116 "Intended meaning:\ndomain: material entity\nrange: spatial region or site (immaterial continuant)" xsd:string
property_value: IAO:0000118 "contained_in" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: RO:0001900 RO:0001901
[Typedef]
id: RO:0002131
name: overlaps
namespace: Planarian_Relationship
def: "x overlaps y iff they have some part in common." [BSPO:cjm]
comment: "(forall (x y) (iff (overlaps x y) (exists (z) (and (part_of z x) (part_of z y)))))" CLIF []
xref: RO:0002131
[Typedef]
id: RO:0002202
name: develops from
namespace: Planarian_Relationship
def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y. This object Property is transitive and as such will be entailed." []
comment: This is the transitive form of the develops from relation
xref: RO:0002202
property_value: http://purl.obolibrary.org/obo/shorthand "develops_from" xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string
property_value: IAO:0000117 "Melissa Haendel" xsd:string
property_value: IAO:0000117 "Terry Meehan" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_transitive: true
[Typedef]
id: RO:0002220
name: adjacent to
namespace: Planarian_Relationship
def: "X adjacent to y if and only if x and y share a boundary. This object Property is symmetric as as such will be applied" []
xref: RO:0002220
property_value: http://purl.obolibrary.org/obo/shorthand "adjacent_to" xsd:string
property_value: IAO:0000112 "A caterpillar walking on the surface of a leaf is adjacent_to the leaf, if one of the caterpillar appendages is touching the leaf. In contrast, a butterfly flying close to a flower is not considered adjacent, unless there are any touching parts." xsd:string
property_value: IAO:0000112 "The epidermis layer of a vertebrate is adjacent to the dermis." xsd:string
property_value: IAO:0000112 "The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies." xsd:string
property_value: IAO:0000112 "The skin of the forelimb is adjacent to the skin of the torso if these are considered anatomical subdivisions with a defined border. Otherwise a relation such as continuous_with would be used." xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000116 "This relation acts as a join point with BSPO" xsd:string
property_value: IAO:0000116 "x adjacent_to y iff: x and y share a boundary" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: RO:0001900 RO:0001901
is_symmetric: true
[Typedef]
id: RO:0002226
name: develops in
namespace: Planarian_Relationship
def: "x develops_in y if x is located in y whilst x is developing" []
comment: This relation take from EHDAA2 - precise semantics yet to be defined
xref: RO:0002226
property_value: http://purl.obolibrary.org/obo/shorthand "develops_in" xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000119 "EHDAA2" xsd:string
property_value: IAO:0000119 "Jonathan Bard, EHDAA2" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
[Typedef]
id: RO:0002285
name: developmentally replaces
namespace: Planarian_Relationship
def: "x developmentally replaces y if and only if there is some developmental process that causes x to move or to cease to exist, and for the site that was occupied by x to become occupied by y, where y either comes into existence in this site or moves to this site from somewhere else" []
xref: RO:0002285
property_value: http://purl.obolibrary.org/obo/shorthand "developmentally_replaces" xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000116 "This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000118 "replaces" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
[Typedef]
id: RO:0002324
name: developmentally related to
namespace: Planarian_Relationship
def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" []
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
[Typedef]
id: RO:0002380
name: branching part of
namespace: Planarian_Relationship
def: "x is a branching part of y if and only if x is part of y and x is connected directly or indirectly to the main stem of y" []
xref: RO:0002380
property_value: http://purl.obolibrary.org/obo/inSubset "ro-eco"
property_value: http://purl.obolibrary.org/obo/shorthand "branching_part_of" xsd:string
property_value: IAO:0000114 IAO:0000428
property_value: IAO:0000116 "we need to check if FMA branch_of implies part_of. the relation we intend to use here should - for example, see vestibulocochlear nerve" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: BFO:0000050 ! part of
[Typedef]
id: RO:0002488
name: existence starts during
namespace: Planarian_Relationship
def: "x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y)." []
synonym: "begins_to_exist_during" EXACT []
xref: RO:0002488
property_value: http://purl.obolibrary.org/obo/shorthand "existence_starts_during" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: RO:0002490 ! existence overlaps
[Typedef]
id: RO:0002489
name: existence starts with
namespace: Planarian_Relationship
def: "x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y). This object Property is transitive and as such will be entailed." []
xref: RO:0002489
property_value: http://purl.obolibrary.org/obo/shorthand "existence_starts_with" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
[Typedef]
id: RO:0002490
name: existence overlaps
namespace: Planarian_Relationship
def: "x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y))" []
comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription.
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
[Typedef]
id: RO:0002491
name: existence starts and ends during
namespace: Planarian_Relationship
def: "x existence starts and ends during y if and only if the start of x is part of y and the end of x is part of y. Formally: x existence starts and ends during y iff α(x) >= α(y) & α(x) <= ω(y) & ω(x) <= ω(y) & ω(x) >= α(y)" []
comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription.
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
is_a: RO:0002492 ! existence ends during
[Typedef]
id: RO:0002492
name: existence ends during
namespace: Planarian_Relationship
def: "x existence ends during y if and only if the time point at which x ends is before or equivalent to the time point at which y ends and after or equivalent to the point at which y starts. Formally: x existence ends during y iff ω(x) <= ω(y) and ω(x) >= α(y)." []
comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription.
synonym: "ceases_to_exist_during" EXACT []
xref: RO:0002492
property_value: http://purl.obolibrary.org/obo/shorthand "existence_ends_during" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: RO:0002490 ! existence overlaps
[Typedef]
id: RO:0002496
name: existence starts during or after
namespace: Planarian_Relationship
def: "x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y)." []
comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription.
xref: RO:0002496
property_value: http://purl.obolibrary.org/obo/shorthand "existence_starts_during_or_after" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
[Typedef]
id: RO:0002497
name: existence ends during or before
namespace: Planarian_Relationship
def: "x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends." []
comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription.
xref: RO:0002497
property_value: http://purl.obolibrary.org/obo/shorthand "existence_ends_during_or_before" xsd:string
property_value: IAO:0000117 "Chris Mungall" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
[Typedef]
id: RO:0002583
name: existence starts at point
namespace: Planarian_Relationship
def: "x existence starts at point y if and only if the time point at which x starts is equivalent to the time point at which y ends." []
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
[Typedef]
id: RO:0002593
name: existence ends at point
namespace: Planarian_Relationship
def: "x existence starts at point y if and only if the time point at which x starts is equivalent to the time point at which y ends." []
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
[Typedef]
id: RO:0003000
name: produces
def: "\na produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix.\n" []
comment: \nNote that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue.\n
subset: ro-eco
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000117 "Melissa Haendel" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
[Typedef]
id: RO:0003001
name: produced by
namespace: Planarian_Relationship
def: "a produced_by b iff some process that occurs_in b has_output a." []
xref: RO:0003001
property_value: http://purl.obolibrary.org/obo/inSubset "ro-eco"
property_value: http://purl.obolibrary.org/obo/shorthand "produced_by" xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000117 "Melissa Haendel" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ro.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
[Typedef]
id: ends
name: ends
namespace: uberon
def: "Relation between occurrents, shares an end boundary with." [Allen:starts, https://orcid.org/0000-0002-6601-2165, ZFS:finishes]
synonym: "finishes" EXACT []
xref: RO:0002229
is_a: BFO:0000050 ! part of
[Typedef]
id: ends_with
name: ends with
namespace: uberon
xref: RO:0002230
is_transitive: true
is_a: BFO:0000051 ! has part
[Typedef]
id: existence_starts_and_ends_during
name: existence starts and ends during
namespace: Planarian_Relationship
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
is_a: RO:0002492 ! existence ends during
[Typedef]
id: immediately_preceded_by
name: immediately_preceded_by
namespace: uberon
def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" []
synonym: "directly preceded by" EXACT []
synonym: "is directly preceded by" EXACT []
synonym: "is immediately preceded by" EXACT [SIO:000251]
synonym: "starts_at_end_of" EXACT []
xref: RO:0002087
property_value: seeAlso SIO:000251
property_value: UBPROP:0000001 "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string
is_a: preceded_by ! preceded_by
[Typedef]
id: parallel_to
name: parallel_to
namespace: Planarian_Relationship
def: "x is parallel t y iff x and y are lines or planes which when extended indefinitely do not cross." [BSPO:curators]
xref: RO:0002220
[Typedef]
id: preceded_by
name: preceded_by
namespace: uberon
def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" []
synonym: "is preceded by" EXACT [SIO:000249]
synonym: "takes place after" EXACT [Allen:precedes]
xref: BFO:0000062
is_transitive: true
[Typedef]
id: precedes
name: precedes
namespace: uberon
xref: BFO:0000063
is_transitive: true
[Typedef]
id: starts
name: starts
namespace: uberon
def: "Relation between occurrents, shares a start boundary with." [Allen:starts, https://orcid.org/0000-0002-6601-2165]
xref: RO:0002223
is_a: BFO:0000050 ! part of
inverse_of: starts_with ! starts with
[Typedef]
id: starts_with
name: starts with
namespace: uberon
xref: RO:0002224
is_transitive: true
is_a: BFO:0000051 ! has part
[Typedef]
id: subdivision_of
name: subdivision of
namespace: Planarian_Relationship
def: "placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B. \nPLANA uses this objectProperty specifically for body region relations. For example, anterior pole subdivision_of anterior." []
comment: placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl