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:=)\nPrefix(rdf:=)\nPrefix(xml:=)\nPrefix(xsd:=)\nPrefix(rdfs:=)\n\n\nOntology(\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(Class())\nDeclaration(ObjectProperty())\nDeclaration(AnnotationProperty())\n\n############################\n# Object Properties\n############################\n\n# Object Property: (part of)\n\nAnnotationAssertion( \"\"^^xsd:string)\n\n\n\n############################\n# Classes\n############################\n\n# Class: (biological_process)\n\nSubClassOf( owl:Thing)\n\n# Class: (biotype)\n\nSubClassOf( owl:Thing)\n\n# Class: (Schmidtea mediterranea developmental stage)\n\nSubClassOf( owl:Thing)\n\n# Class: (Schmidtea mediterranea developmental term)\n\nSubClassOf( owl:Thing)\n\n# Class: (anatomical entity)\n\nSubClassOf( owl:Thing)\n\n# Class: (processual entity)\n\nSubClassOf( owl:Thing)\n\n\nEquivalentClasses(ObjectUnionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )) ObjectSomeValuesFrom( ))\nDisjointClasses(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^xsd:string)\nAnnotationAssertion( \"\"^^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