format-version: 1.2 data-version: releases/2023-05-27 subsetdef: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_gp2term "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_ontology "" subsetdef: http://purl.obolibrary.org/obo/valid_for_gocam "" subsetdef: ro-eco "" subsetdef: RO:0002259 "" 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: spatial namespace-id-rule: * BSPO:$sequence(7,0,999999999)$ remark: based on FBql ontology: bspo property_value: http://purl.org/dc/elements/1.1/description "An ontology for respresenting spatial concepts, anatomical axes, gradients, regions, planes, sides and surfaces. These concepts can be used at multiple biological scales and in a diversity of taxa, including plants, animals and fungi. The BSPO is used to provide a source of anatomical location descriptors for logically defining anatomical entity classes in anatomy ontologies." xsd:string property_value: http://purl.org/dc/elements/1.1/title "Biological Spatial Ontology" xsd:string property_value: http://purl.org/dc/terms/license https://creativecommons.org/licenses/by/3.0/ property_value: IAO:0000700 CARO:0000000 property_value: owl:versionInfo "2023-05-27" xsd:string [Term] id: BFO:0000002 name: continuant def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] disjoint_from: BFO:0000003 ! occurrent relationship: part_of BFO:0000002 ! continuant [Term] id: BFO:0000003 name: occurrent def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] relationship: part_of BFO:0000003 ! occurrent [Term] id: BFO:0000004 name: independent continuant def: "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." [] is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000020 ! specifically dependent continuant relationship: part_of BFO:0000004 ! independent continuant [Term] id: BFO:0000015 name: process def: "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." [] is_a: BFO:0000003 ! occurrent [Term] id: BFO:0000016 name: disposition is_a: BFO:0000017 ! realizable entity disjoint_from: BFO:0000023 ! role [Term] id: BFO:0000017 name: realizable entity def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." [] is_a: BFO:0000020 ! specifically dependent continuant disjoint_from: BFO:0000019 ! quality relationship: part_of BFO:0000017 ! realizable entity [Term] id: BFO:0000019 name: quality is_a: BFO:0000020 ! specifically dependent continuant relationship: part_of BFO:0000019 ! quality [Term] id: BFO:0000020 name: specifically dependent continuant def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." [] is_a: BFO:0000002 ! continuant relationship: part_of BFO:0000020 ! specifically dependent continuant [Term] id: BFO:0000023 name: role def: "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." [] is_a: BFO:0000017 ! realizable entity [Term] id: BFO:0000034 name: function is_a: BFO:0000016 ! disposition [Term] id: BFO:0000040 name: material entity def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] is_a: BFO:0000004 ! independent continuant disjoint_from: BFO:0000141 ! immaterial entity [Term] id: BFO:0000141 name: immaterial entity is_a: BFO:0000004 ! independent continuant [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 [] is_a: BSPO:0000054 ! anatomical side relationship: left_of BSPO:0000007 ! right side relationship: starts_axis BSPO:0000017 ! left-right axis [Term] id: BSPO:0000001 name: upper side comment: Consider merging with superior side. synonym: "upper" EXACT [] is_a: BSPO:0000054 ! anatomical side relationship: starts_axis BSPO:0000011 ! upper-lower axis [Term] id: BSPO:0000002 name: lower side comment: Consider merging with inferior side. synonym: "lower" EXACT [] is_a: BSPO:0000054 ! anatomical side relationship: finishes_axis BSPO:0000011 ! upper-lower axis [Term] id: BSPO:00000021 name: deep-superficial gradient (obsolete) comment: was made obsolete because the ID had too many digits is_obsolete: true replaced_by: BSPO:0000021 [Term] id: BSPO:0000003 name: deep side synonym: "deep" EXACT [] is_a: BSPO:0000054 ! anatomical side relationship: deep_to BSPO:0000004 ! superficial side relationship: starts_axis BSPO:0000012 ! deep-superficial axis [Term] id: BSPO:0000004 name: superficial side synonym: "superficial" EXACT [] is_a: BSPO:0000054 ! anatomical side relationship: finishes_axis BSPO:0000012 ! deep-superficial axis [Term] id: BSPO:0000005 name: anatomical surface def: "A 2D surface of an anatomical continuant." [BSPO:cjm] comment: to be merged into CARO synonym: "surface" EXACT [] xref: FMA:24137 is_a: CARO:0000010 ! anatomical boundary [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 [] 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 [] is_a: BSPO:0000054 ! anatomical side relationship: finishes_axis BSPO:0000017 ! left-right axis [Term] id: BSPO:0000008 name: parasagittal plane def: "Sagittal plane that divides a bilateral body into unequal left and right parts." [BSPO:mah] synonym: "parasagittal section" EXACT [] is_a: BSPO:0000417 ! sagittal plane [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: FMA:74563 is_a: BSPO:0000417 ! 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: http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG is_a: CARO:0000008 ! anatomical line relationship: passes_through CARO:0000000 ! anatomical entity [Term] id: BSPO:0000011 name: upper-lower axis def: "An anatomical axis determined by gravity." [BSPO:cjm] synonym: "superior-inferior axis" RELATED [] is_a: BSPO:0000010 ! anatomical axis [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'. is_a: BSPO:0000010 ! anatomical axis [Term] id: BSPO:0000013 name: anterior-posterior axis def: "An axis that extends through an organism from head end to opposite end of body or tail." [BSPO:cjm] comment: In sponges, AP is used to indicate the direction of movement [in larval stage] (as it is in other metazoans that move, e.g., the basal bilaterians). [PM] synonym: "A-P axis" EXACT [] synonym: "anteroposterior axis" EXACT [] synonym: "AP axis" EXACT [] synonym: "cephalocaudal axis" NARROW [http://en.wikipedia.org/wiki/Anatomical_terms_of_location] synonym: "craniocaudal axis" NARROW vertebrate [] synonym: "longitudinal axis" RELATED [] synonym: "rostral/caudal" NARROW vertebrate [] synonym: "rostrocaudal axis" NARROW vertebrate [] is_a: BSPO:0000010 ! anatomical axis intersection_of: BSPO:0000010 ! anatomical axis intersection_of: orthogonal_to BSPO:0000018 ! transverse plane relationship: approximately_perpendicular_to BSPO:0000016 ! dorsal-ventral axis relationship: orthogonal_to BSPO:0000018 ! transverse plane [Term] id: BSPO:0000014 name: apical-basal axis relative to substrate def: "An axis that extends through an organism or organism part from the part of the organism or organism part attached to a substrate (basal) to the furthest from the attachment (apical). Note that the apical-basal axis is often used for organismal parts where there is attachment via a basal lamina or other structure." [BSPO:mah] synonym: "apical/basal" EXACT [] synonym: "longitudinal axis" RELATED [] is_a: BSPO:0000010 ! anatomical axis [Term] id: BSPO:0000015 name: proximal-distal axis def: "An axis that extends from the point of attachment of a structure (proximal) to the point furthest away from the plane of attachment (distal)." [BSPO:curators, http://en.wikipedia.org/wiki/Anatomical_terms_of_location] comment: In some communities, proximal and distal are used when specifying the position of parts of elements that are contained within the body, such as gill arches or vertebral spines. In these cases, use of the classes medial-lateral axis or medial-external axis are more appropriate. synonym: "proximal/distal" EXACT [] synonym: "proximodistal" EXACT [] is_a: BSPO:0000010 ! anatomical axis [Term] id: BSPO:0000016 name: dorsal-ventral axis def: "An axis that is approximately perpendicular to the anterior-posterior axis and that extends through the horizontal plane of the body." [BSPO:curators] synonym: "anterior-posterior axis" NARROW human [] synonym: "D-V axis" EXACT [] synonym: "dorsoventral axis" EXACT [] synonym: "DV axis" EXACT [] is_a: BSPO:0000010 ! anatomical axis intersection_of: BSPO:0000010 ! anatomical axis intersection_of: orthogonal_to BSPO:0000019 ! horizontal plane relationship: orthogonal_to BSPO:0000019 ! horizontal plane [Term] id: BSPO:0000017 name: left-right axis def: "An axis that bisects an organism from left to right sides of body, through a sagittal plane." [BSPO:cjm] synonym: "dextro-sinister axis" EXACT [] synonym: "L-R axis" EXACT [] synonym: "left to right axis" EXACT [] synonym: "LR axis" EXACT [] synonym: "R-L axis" EXACT [] synonym: "right to left axis" EXACT [] synonym: "right-left axis" EXACT [] synonym: "RL axis" EXACT [] is_a: BSPO:0000010 ! anatomical axis intersection_of: BSPO:0000010 ! anatomical axis intersection_of: orthogonal_to BSPO:0000417 ! sagittal plane relationship: orthogonal_to BSPO:0000417 ! sagittal plane [Term] id: BSPO:0000018 name: transverse plane def: "Anatomical plane that divides body into anterior and posterior parts." [BSPO:mah] synonym: "axial plane" EXACT [] synonym: "axial section" EXACT [] synonym: "cross-section" RELATED [] synonym: "transverse section" EXACT [] xref: FMA:12247 is_a: BSPO:0000400 ! anatomical plane [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: FMA:52810 is_a: BSPO:0000400 ! anatomical plane [Term] id: BSPO:0000020 name: upper-lower gradient def: "Anatomical gradient that is distributed along the upper-lower axis." [BSPO:wd] is_a: BSPO:0000051 ! anatomical gradient intersection_of: BSPO:0000051 ! anatomical gradient intersection_of: follows_axis BSPO:0000011 ! upper-lower axis relationship: follows_axis BSPO:0000011 ! upper-lower axis [Term] id: BSPO:0000021 name: deep-superficial gradient def: "Anatomical gradient that is distributed along the deep-superficial axis." [BSPO:wd] is_a: BSPO:0000051 ! anatomical gradient intersection_of: BSPO:0000051 ! anatomical gradient intersection_of: follows_axis BSPO:0000012 ! deep-superficial axis relationship: follows_axis BSPO:0000012 ! deep-superficial axis [Term] id: BSPO:0000022 name: superior side def: "The side that is higher relative to the substrate." [BSPO:curators] synonym: "cranial" RELATED [] synonym: "superior" EXACT [] is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000023 name: apical-basal gradient def: "Anatomical gradient that is distributed along the apical-basal axis." [BSPO:wd] is_a: BSPO:0000051 ! anatomical gradient intersection_of: BSPO:0000051 ! anatomical gradient intersection_of: follows_axis BSPO:0000014 ! apical-basal axis relative to substrate relationship: follows_axis BSPO:0000014 ! apical-basal axis relative to substrate [Term] id: BSPO:0000024 name: proximal-distal gradient def: "Anatomical gradient that is distributed along the proximal-distal axis." [BSPO:wd] is_a: BSPO:0000051 ! anatomical gradient intersection_of: BSPO:0000051 ! anatomical gradient intersection_of: follows_axis BSPO:0000015 ! proximal-distal axis relationship: follows_axis BSPO:0000015 ! proximal-distal axis [Term] id: BSPO:0000025 name: inferior side def: "The side that is lower relative to the substrate." [BSPO:curators] synonym: "caudal" RELATED [] synonym: "inferior" EXACT [] is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000026 name: antero-dorsal region def: "Anatomical region that overlaps the anterior and dorsal regions of a body or body part." [BSPO:wd] synonym: "anterodorsal region " EXACT [] is_a: BSPO:0000071 ! anterior region is_a: BSPO:0000079 ! dorsal region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000063 ! dorsal side created_by: Melissa Haendel creation_date: 2009-06-15T01:01:38Z [Term] id: BSPO:0000027 name: antero-ventral region def: "Anatomical region that overlaps the anterior and ventral regions of a body or body part." [BSPO:wd] synonym: "anteroventral region " EXACT [] is_a: BSPO:0000071 ! anterior region is_a: BSPO:0000084 ! ventral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000068 ! ventral side created_by: Melissa Haendel creation_date: 2009-06-15T01:04:59Z [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 [] is_a: BSPO:0000072 ! posterior region is_a: BSPO:0000082 ! lateral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000066 ! lateral side 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 [] is_a: BSPO:0000071 ! anterior region is_a: BSPO:0000082 ! lateral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000066 ! lateral side created_by: Melissa Haendel creation_date: 2009-06-15T01:07:18Z [Term] id: BSPO:0000030 name: postero-dorsal region def: "Anatomical region that overlaps the posterior and dorsal regions of the body or body part." [BSPO:wd] synonym: "posterodorsal region" EXACT [] is_a: BSPO:0000072 ! posterior region is_a: BSPO:0000079 ! dorsal region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000063 ! dorsal side created_by: Melissa Haendel creation_date: 2009-06-15T01:08:13Z [Term] id: BSPO:0000031 name: upper region is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000001 ! upper side relationship: overlaps BSPO:0000001 ! upper side [Term] id: BSPO:0000032 name: lower region is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000002 ! lower side relationship: overlaps BSPO:0000002 ! lower side [Term] id: BSPO:0000033 name: deep region def: "Anatomical region located deep within an organism or structure." [BSPO:wd] is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000003 ! deep side relationship: overlaps BSPO:0000003 ! deep side [Term] id: BSPO:0000034 name: superficial region def: "Anatomical region superficially located on the body or body part." [BSPO:wd] is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000004 ! superficial side relationship: overlaps BSPO:0000004 ! superficial side [Term] id: BSPO:0000035 name: postero-ventral region def: "Anatomical region that overlaps the posterior and ventral regions of a body or body part." [BSPO:wd] synonym: "posteroventral region" EXACT [] is_a: BSPO:0000072 ! posterior region is_a: BSPO:0000084 ! ventral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000068 ! ventral side created_by: Melissa Haendel creation_date: 2009-06-15T01:08:38Z [Term] id: BSPO:0000036 name: anterior-most region synonym: "anterior-most" EXACT [] synonym: "anteriormost" EXACT [] 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 [] 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 [] 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 [] is_a: BSPO:0000084 ! ventral region created_by: Melissa Haendel creation_date: 2009-06-16T08:51:07Z [Term] id: BSPO:0000040 name: upper/lower compartment boundary is_a: BSPO:0000092 ! anatomical compartment boundary intersection_of: BSPO:0000092 ! anatomical compartment boundary intersection_of: has_axis BSPO:0000011 ! upper-lower axis relationship: has_axis BSPO:0000011 ! upper-lower axis [Term] id: BSPO:0000041 name: deep/superficial compartment boundary is_a: BSPO:0000092 ! anatomical compartment boundary intersection_of: BSPO:0000092 ! anatomical compartment boundary intersection_of: has_axis BSPO:0000012 ! deep-superficial axis relationship: has_axis BSPO:0000012 ! 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 [] is_a: BSPO:0000050 ! antero-medial region is_a: BSPO:0000671 ! anterior margin is_a: BSPO:0000683 ! medial margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000067 ! medial side created_by: Melissa Haendel creation_date: 2009-09-10T08:49:57Z [Term] id: BSPO:0000043 name: apical/basal compartment boundary is_a: BSPO:0000092 ! anatomical compartment boundary intersection_of: BSPO:0000092 ! anatomical compartment boundary intersection_of: has_axis BSPO:0000014 ! apical-basal axis relative to substrate relationship: has_axis BSPO:0000014 ! apical-basal axis relative to substrate [Term] id: BSPO:0000044 name: proximal/distal compartment boundary is_a: BSPO:0000092 ! anatomical compartment boundary intersection_of: BSPO:0000092 ! anatomical compartment boundary intersection_of: has_axis BSPO:0000015 ! proximal-distal axis relationship: has_axis BSPO:0000015 ! proximal-distal axis [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 [] is_a: BSPO:0000029 ! antero-lateral region is_a: BSPO:0000671 ! anterior margin is_a: BSPO:0000682 ! lateral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000066 ! lateral side 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 [] is_a: BSPO:0000064 ! postero-medial region is_a: BSPO:0000672 ! posterior margin is_a: BSPO:0000683 ! medial margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000067 ! 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 [] is_a: BSPO:0000028 ! postero-lateral region is_a: BSPO:0000672 ! posterior margin is_a: BSPO:0000682 ! lateral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000066 ! lateral side 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 [] is_a: BSPO:0000069 ! dorso-medial region is_a: BSPO:0000679 ! dorsal margin is_a: BSPO:0000683 ! medial margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000063 ! dorsal side intersection_of: overlaps BSPO:0000067 ! 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 [] is_a: BSPO:0000112 ! ventro-medial region is_a: BSPO:0000683 ! medial margin is_a: BSPO:0000684 ! ventral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000067 ! medial side intersection_of: overlaps BSPO:0000068 ! ventral side created_by: Melissa Haendel creation_date: 2009-09-10T08:52:48Z [Term] id: BSPO:0000050 name: antero-medial region def: "Anatomical region that overlaps the anterior and medial regions of the body or body part." [BSPO:wd] synonym: "anteromedial region" EXACT [] is_a: BSPO:0000071 ! anterior region is_a: BSPO:0000083 ! medial region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000067 ! medial side created_by: Melissa Haendel creation_date: 2009-09-10T08:55:32Z [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: FBql:00005254 is_a: CARO:0000006 ! 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: FBcv:0000142 xref: FBql:00005256 is_a: BSPO:0000051 ! anatomical gradient intersection_of: BSPO:0000051 ! anatomical gradient intersection_of: has_axis BSPO:0000013 ! anterior-posterior axis relationship: has_axis BSPO:0000013 ! anterior-posterior axis [Term] id: BSPO:0000053 name: dorsal-ventral gradient def: "Anatomical gradient that is distributed along the dorsal-ventral axis." [BSPO:wd] xref: FBcv:0000143 xref: FBql:00005255 is_a: BSPO:0000051 ! anatomical gradient intersection_of: BSPO:0000051 ! anatomical gradient intersection_of: has_axis BSPO:0000016 ! dorsal-ventral axis relationship: has_axis BSPO:0000016 ! dorsal-ventral axis [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: 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: FBcv:0000053 xref: FBql:00005848 is_a: BSPO:0000054 ! anatomical side relationship: anterior_to BSPO:0000056 ! posterior side relationship: opposite_to BSPO:0000056 ! posterior side relationship: starts_axis BSPO:0000013 ! anterior-posterior axis [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: FBcv:0000065 xref: FBql:00005849 is_a: BSPO:0000054 ! anatomical side relationship: finishes_axis BSPO:0000013 ! anterior-posterior axis relationship: posterior_to BSPO:0000055 ! 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: FBcv:0000054 xref: FBql:00005854 is_a: BSPO:0000054 ! anatomical side relationship: opposite_to BSPO:0000058 ! basal side relationship: starts_axis BSPO:0000014 ! apical-basal axis relative to substrate [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: FBcv:0000055 xref: FBql:00005855 is_a: BSPO:0000054 ! anatomical side relationship: finishes_axis BSPO:0000014 ! apical-basal axis relative to substrate [Term] id: BSPO:0000059 name: central side def: "Anatomical side that is centrally located on an organism or structure." [BSPO:wd] comment: central is not an axis direction synonym: "central" EXACT [] xref: FBcv:0000056 xref: FBql:00015851 is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000060 name: contralateral side def: "On the opposite side." [BSPO:cjm] comment: inherited from flybase cv. not clear how this would be used. Suggest we obsolete, and use the corresponding relation. synonym: "contralateral" EXACT [] xref: FBcv:0000057 xref: FBql:00005851 is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000061 name: proximal side synonym: "proximal" EXACT [] xref: FBcv:0000066 xref: FBql:00005852 is_a: BSPO:0000054 ! anatomical side relationship: opposite_to BSPO:0000062 ! distal side relationship: starts_axis BSPO:0000015 ! proximal-distal axis [Term] id: BSPO:0000062 name: distal side def: "Anatomical side that is distally located on an organism or structure." [BSPO:wd] synonym: "distal" EXACT [] xref: FBcv:0000058 xref: FBql:00005853 is_a: BSPO:0000054 ! anatomical side relationship: distal_to BSPO:0000061 ! proximal side relationship: finishes_axis BSPO:0000015 ! proximal-distal axis [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: FBcv:0000059 xref: FBql:00005842 is_a: BSPO:0000054 ! anatomical side relationship: dorsal_to BSPO:0000066 ! lateral side relationship: opposite_to BSPO:0000068 ! ventral side relationship: starts_axis BSPO:0000016 ! dorsal-ventral axis [Term] id: BSPO:0000064 name: postero-medial region def: "Anatomical region that overlaps the posterior and medial regions of the body or body part." [BSPO:wd] synonym: "posteromedial region" EXACT [] is_a: BSPO:0000072 ! posterior region is_a: BSPO:0000083 ! medial region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000067 ! medial side created_by: Melissa Haendel creation_date: 2009-09-10T08:56:39Z [Term] id: BSPO:0000065 name: ipsilateral side def: "On the same side" [BSPO:cjm] comment: inherited from flybase cv. not clear how this would be used. Suggest we obsolete, and use the corresponding relation. synonym: "ipsilateral" EXACT [] xref: FBcv:0000062 xref: FBql:00005850 is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000066 name: lateral side synonym: "lateral" EXACT [] xref: FBcv:0000063 xref: FBql:00005844 is_a: BSPO:0000054 ! anatomical 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: 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: FBcv:0000070 xref: FBql:00005843 is_a: BSPO:0000054 ! anatomical side relationship: finishes_axis BSPO:0000016 ! dorsal-ventral axis [Term] id: BSPO:0000069 name: dorso-medial region def: "Anatomical region that overlaps the dorsal and medial regions of the body or body part." [BSPO:wd] synonym: "dorsomedial region" EXACT [] is_a: BSPO:0000079 ! dorsal region is_a: BSPO:0000083 ! medial region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000063 ! dorsal side intersection_of: overlaps BSPO:0000067 ! medial side created_by: Melissa Haendel creation_date: 2009-09-10T08:57:22Z [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: FBql:00005841 is_a: CARO:0000003 ! connected anatomical structure [Term] id: BSPO:0000071 name: anterior region def: "Anatomical region anteriorly located on the body or body part." [BSPO:wd] xref: FBql:00005848 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000055 ! anterior side relationship: overlaps BSPO:0000055 ! anterior side [Term] id: BSPO:0000072 name: posterior region def: "Anatomical region posteriorly located on the body or body part." [BSPO:wd] xref: FBql:00005849 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000056 ! posterior side relationship: overlaps BSPO:0000056 ! 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: FBql:00005854 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000057 ! apical side relationship: overlaps BSPO:0000057 ! apical side [Term] id: BSPO:0000074 name: basal region def: "Anatomical region located basally on the body or body part." [BSPO:wd] xref: FBql:00005855 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000058 ! basal side relationship: overlaps BSPO:0000058 ! basal side [Term] id: BSPO:0000075 name: central region def: "Anatomical region centrally located on the body or body part." [BSPO:wd] xref: FBql:00015851 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000059 ! central side relationship: overlaps BSPO:0000059 ! central side [Term] id: BSPO:0000076 name: contralateral region comment: inherited from flybase cv. not clear how this would be used xref: FBql:00005851 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000060 ! contralateral side relationship: overlaps BSPO:0000060 ! contralateral side [Term] id: BSPO:0000077 name: proximal region def: "Anatomical region proximally located on the body or body part." [BSPO:wd] xref: FBql:00005852 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000061 ! proximal side relationship: overlaps BSPO:0000061 ! proximal side [Term] id: BSPO:0000078 name: distal region def: "Anatomical region distally located on the body or body part." [BSPO:wd] xref: FBql:00005853 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000062 ! distal side relationship: overlaps BSPO:0000062 ! distal side [Term] id: BSPO:0000079 name: dorsal region def: "Anatomical region dorsally located on the body or body part." [BSPO:wd] xref: FBql:00005842 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000063 ! dorsal side relationship: overlaps BSPO:0000063 ! 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: FBql:00005845 is_a: BSPO:0000079 ! dorsal region is_a: BSPO:0000082 ! lateral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000063 ! dorsal side intersection_of: overlaps BSPO:0000066 ! lateral side [Term] id: BSPO:0000081 name: ipsilateral region xref: FBql:00005850 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000065 ! ipsilateral side relationship: overlaps BSPO:0000065 ! ipsilateral side [Term] id: BSPO:0000082 name: lateral region def: "Anatomical region laterally located on the body or body part." [BSPO:wd] xref: FBql:00005844 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000066 ! lateral side relationship: overlaps BSPO:0000066 ! lateral side [Term] id: BSPO:0000083 name: medial region def: "Anatomical region medially located on the body or body part." [BSPO:wd] xref: FBql:00005847 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000067 ! medial side relationship: overlaps BSPO:0000067 ! medial side [Term] id: BSPO:0000084 name: ventral region def: "Anatomical region ventrally located on the body or body part." [BSPO:wd] xref: FBql:00005843 is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000068 ! ventral side relationship: overlaps BSPO:0000068 ! 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: FBql:00005846 is_a: BSPO:0000082 ! lateral region is_a: BSPO:0000084 ! ventral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000066 ! lateral side intersection_of: overlaps BSPO:0000068 ! ventral side [Term] id: BSPO:0000086 name: anatomical compartment comment: to be merged into CARO xref: FBql:00005873 xref: FMA:9647 is_a: CARO:0000003 ! connected anatomical structure [Term] id: BSPO:0000087 name: anterior compartment xref: FBcv:0000031 xref: FBql:00005874 is_a: BSPO:0000086 ! anatomical compartment [Term] id: BSPO:0000088 name: compartment boundary xref: FBcv:0000032 xref: FBql:00005878 is_a: BSPO:0000086 ! anatomical compartment [Term] id: BSPO:0000089 name: dorsal compartment xref: FBcv:0000035 xref: FBql:00005876 is_a: BSPO:0000086 ! anatomical compartment [Term] id: BSPO:0000090 name: posterior compartment xref: FBcv:0000036 xref: FBql:00005875 is_a: BSPO:0000086 ! anatomical compartment [Term] id: BSPO:0000091 name: ventral compartment xref: FBcv:0000037 xref: FBql:00005877 is_a: BSPO:0000086 ! anatomical compartment [Term] id: BSPO:0000092 name: anatomical compartment boundary comment: to be merged into CARO xref: FBql:00005881 is_a: CARO:0000010 ! anatomical boundary [Term] id: BSPO:0000093 name: anterior/posterior compartment boundary xref: FBcv:0000033 xref: FBql:00005880 is_a: BSPO:0000092 ! anatomical compartment boundary [Term] id: BSPO:0000094 name: dorsal/ventral compartment boundary xref: FBcv:0000034 xref: FBql:00005879 is_a: BSPO:0000092 ! anatomical compartment boundary [Term] id: BSPO:0000112 name: ventro-medial region def: "The region corresponding to the ventral region of the entity, towards the midline." [BSPO:wd] synonym: "medioventral region" EXACT [] synonym: "ventromedial region" EXACT [] is_a: BSPO:0000083 ! medial region is_a: BSPO:0000084 ! ventral region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000067 ! medial side intersection_of: overlaps BSPO:0000068 ! ventral side created_by: Melissa Haendel creation_date: 2009-09-10T08:57:54Z [Term] id: BSPO:0000127 name: peripheral region def: "Anatomical region peripherally located on the body or body part." [BSPO:wd] is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000129 ! peripheral side relationship: overlaps BSPO:0000129 ! peripheral side [Term] id: BSPO:0000128 name: axial region is_a: BSPO:0000070 ! anatomical region intersection_of: BSPO:0000070 ! anatomical region intersection_of: overlaps BSPO:0000130 ! axial side relationship: overlaps BSPO:0000130 ! axial side [Term] id: BSPO:0000129 name: peripheral side is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000130 name: axial side is_a: BSPO:0000054 ! anatomical side [Term] id: BSPO:0000195 name: adaxial-abaxial axis def: "An anatomical axis that extends from the side of the anatomical entity that is closer to an axis (adaxial) to the side that is further from the same axis (abaxial)." [BSPO:RW] synonym: "AA axis" EXACT [] synonym: "dorsal-ventral axis" RELATED [] is_a: BSPO:0000010 ! anatomical axis created_by: wasila.dahdul creation_date: 2013-07-02T11:20:29Z [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 [] 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 [] is_a: BSPO:0000196 ! medial-external axis created_by: wasila.dahdul creation_date: 2013-07-02T11:23:31Z [Term] id: BSPO:0000198 name: oral-aboral axis def: "An axis that extends from the oral opening to the furthest point in an organism that is directly opposite." [BSPO:PM] is_a: BSPO:0000010 ! anatomical axis created_by: wasila.dahdul creation_date: 2013-07-02T11:29:33Z [Term] id: BSPO:0000199 name: animal-vegetal axis def: "An axis that extends from the animal end of an egg or early embryo to the opposite, vegetal end. In animals with yolk-bearing eggs, the vegetal end is the yolk bearing pole. (pertains to animals only - both vertebrate and invertebrate embryos)." [BSPO:PM] synonym: "A-V axis" EXACT [] synonym: "animal/vegetal axis" EXACT [] synonym: "AV axis" EXACT [] is_a: BSPO:0000010 ! anatomical axis created_by: wasila.dahdul creation_date: 2013-07-02T11:30:13Z [Term] id: BSPO:0000200 name: apical-basal axis relative to direction of growth def: "An axis of a plant structure that is determined by the direction of apical growth, either by an apical meristem or an apical cell. Apical is toward the direction of apical growth: toward the tip of a growing shoot axis, root, thallus, or non-vascular leaf. Basal is away from the direction of apical growth: toward the root-shoot junction in the case of the primary root or stem, toward the primary root or stem for higher order roots or branches, toward the point of attachment for non-vascular leaves, and toward the original point of growth (as determined in the embryo) for thalli." [BSPO:RW] comment: Plant structures that do not grow from an apical meristem, such as vascular leaves or petals, should be described using the proximal-distal axis. The proximal-distal axis may also be used for branches or lateral roots, and, in those cases, is concordant with the apical-basal axis. is_a: BSPO:0000010 ! anatomical axis [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. is_a: BSPO:0000400 ! 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. is_a: BSPO:0000400 ! 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: FBql:00005848 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000055 ! anterior side relationship: surface_of BSPO:0000055 ! 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: FBql:00005849 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000056 ! posterior side relationship: surface_of BSPO:0000056 ! 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: FBql:00005854 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000057 ! apical side relationship: surface_of BSPO:0000057 ! 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: FBql:00005855 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000058 ! basal side relationship: surface_of BSPO:0000058 ! basal side [Term] id: BSPO:0000376 name: contralateral surface xref: FBql:00005851 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000060 ! contralateral side relationship: surface_of BSPO:0000060 ! contralateral side [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: FBql:00005852 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000061 ! proximal side relationship: surface_of BSPO:0000061 ! proximal side [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: FBql:00005853 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000062 ! distal side relationship: surface_of BSPO:0000062 ! distal side [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: FBql:00005842 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000063 ! dorsal side relationship: surface_of BSPO:0000063 ! 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: FBql:00005850 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000065 ! ipsilateral side relationship: surface_of BSPO:0000065 ! ipsilateral side [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: FBql:00005844 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000066 ! lateral side relationship: surface_of BSPO:0000066 ! lateral side [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: FBql:00005847 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000067 ! medial side relationship: surface_of BSPO:0000067 ! 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: FBql:00005843 is_a: BSPO:0000005 ! anatomical surface intersection_of: BSPO:0000005 ! anatomical surface intersection_of: surface_of BSPO:0000068 ! ventral side relationship: surface_of BSPO:0000068 ! ventral side [Term] id: BSPO:0000400 name: anatomical plane def: "A flat 2D plane intersecting an anatomical continuant, dividing it into two adjacent portions." [BSPO:cjm] comment: These anatomical sections are applicable to most bilaterally symmetrical animals, but bipedal animals such as humans have more complex usage of these terms. For example, in post-embryonic humans a coronal plane is vertical and a transverse plane is horizontal, but for embryos and quadrupeds a coronal plane is horizontal and a transverse plane is vertical. synonym: "anatomical cross-section" EXACT [] synonym: "anatomical section" EXACT [] synonym: "cross-section" RELATED [] synonym: "plane" EXACT [] synonym: "section" EXACT [] xref: FMA:242982 is_a: CARO:0000010 ! anatomical boundary [Term] id: BSPO:0000417 name: sagittal plane def: "Anatomical plane that divides a bilateral body into left and right parts, not necessarily of even size." [BSPO:cjm, BSPO:DOS, BSPO:mah] synonym: "left/right plane" EXACT [] synonym: "median plane" EXACT [] synonym: "sagittal section" EXACT [] xref: FMA:11361 is_a: BSPO:0000010 ! anatomical axis is_a: BSPO:0000400 ! anatomical plane intersection_of: BSPO:0000400 ! anatomical plane intersection_of: BSPO:0001102 BSPO:0000013 ! parallel to anterior-posterior axis intersection_of: BSPO:0001102 BSPO:0000016 ! parallel to dorsal-ventral axis intersection_of: orthogonal_to BSPO:0000017 ! left-right axis relationship: BSPO:0001102 BSPO:0000013 ! parallel to anterior-posterior axis relationship: BSPO:0001102 BSPO:0000016 ! parallel to dorsal-ventral axis relationship: orthogonal_to BSPO:0000017 ! left-right axis [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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000071 ! anterior region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000055 ! 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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000072 ! posterior region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000056 ! 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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000073 ! apical region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000057 ! 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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000074 ! basal region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000058 ! 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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000077 ! proximal region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000061 ! proximal side [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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000078 ! distal region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000062 ! distal side [Term] id: BSPO:0000679 name: dorsal margin def: "Anatomical margin that is located on the dorsal side of body or body part." [BSPO:wd] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000079 ! dorsal region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000063 ! 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 [] is_a: BSPO:0000080 ! dorso-lateral region is_a: BSPO:0000679 ! dorsal margin is_a: BSPO:0000682 ! lateral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000063 ! dorsal side intersection_of: overlaps BSPO:0000066 ! lateral side [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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000082 ! lateral region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000066 ! lateral side [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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000083 ! medial region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000067 ! 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] is_a: BSPO:0000006 ! anatomical margin is_a: BSPO:0000084 ! ventral region intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000068 ! 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 [] is_a: BSPO:0000085 ! ventro-lateral region is_a: BSPO:0000682 ! lateral margin is_a: BSPO:0000684 ! ventral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000066 ! lateral side intersection_of: overlaps BSPO:0000068 ! ventral side [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 [] is_a: BSPO:0000026 ! antero-dorsal region is_a: BSPO:0000671 ! anterior margin is_a: BSPO:0000679 ! dorsal margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000063 ! 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 [] is_a: BSPO:0000030 ! postero-dorsal region is_a: BSPO:0000672 ! posterior margin is_a: BSPO:0000679 ! dorsal margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000063 ! 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 [] is_a: BSPO:0000027 ! antero-ventral region is_a: BSPO:0000671 ! anterior margin is_a: BSPO:0000684 ! ventral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000055 ! anterior side intersection_of: overlaps BSPO:0000068 ! 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 [] is_a: BSPO:0000035 ! postero-ventral region is_a: BSPO:0000672 ! posterior margin is_a: BSPO:0000684 ! ventral margin intersection_of: BSPO:0000006 ! anatomical margin intersection_of: overlaps BSPO:0000056 ! posterior side intersection_of: overlaps BSPO:0000068 ! ventral side [Term] id: BSPO:0001001 name: medial-lateral axis def: "An axis that extends from the center of organism to one or other side." [BSPO:cjm] comment: Properly, the ML axis is a half axis; practically, its usage is less clumsy and less linguistically biased than "left-right". The terms may still be used relatively to describe locations along the LR axis. The gills are medial to the operculum, but lateral to the heart. synonym: "M-L axis" EXACT [] synonym: "medio-lateral axis" EXACT [] synonym: "mediolateral axis" EXACT [] synonym: "ML axis" EXACT [] synonym: "proximal-distal axis " RELATED [] xref: http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG is_a: BSPO:0000196 ! medial-external axis [Term] id: CARO:0000000 name: anatomical entity def: "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex. Or, a substance produced by a cellular organism with granularity above the level of a protein complex." [CAROC:Brownsville2014] 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." [CARO:MAH] comment: Following BFO, material anatomical entities may have immaterial parts (the lumen of your stomach is part of your stomach). The granularity limit follows the limits set by the Gene Ontology on the granularity limit for GO:cellular_component. Note that substances produced by an organism (sweat, feaces, urine) do not need to be part of an organism to qualify as an anatomical structure. is_a: BFO:0000004 ! independent continuant [Term] id: CARO:0000003 name: anatomical structure name: connected 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." [CC:DOS] comment: Note that the definition does not say 'generated exclusively by the co-ordinated expression of the organism's own genome', so this is still valid for cases where normal morphogenesis requires the actions of a facultative symbiont, or some looser dependency such as the a requirement for the presence of gut flora for normal gut development. is_a: CARO:0000006 ! material anatomical entity [Term] id: CARO:0000006 name: material anatomical entity def: "An anatomical entity that has mass." [CC:DOS] is_a: CARO:0000000 ! anatomical entity disjoint_from: CARO:0000007 ! immaterial anatomical entity [Term] id: CARO:0000007 name: immaterial anatomical entity def: "An anatomical entity that has no mass." [CC:DOS] def: "Anatomical entity that has no mass." [] is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity [Term] id: CARO:0000008 name: anatomical line def: "A one dimensional, immaterial anatomical entity." [CC:DOS] is_a: CARO:0000007 ! immaterial anatomical entity [Term] id: CARO:0000010 name: anatomical boundary def: "A non-material anatomical entity of two dimensions. Anatomical boundaries are contiguous structures." [CC:DOS] is_a: CARO:0000007 ! immaterial anatomical entity [Term] id: GO:0003674 name: molecular_function def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. synonym: "molecular function" EXACT [] [Term] id: GO:0008150 name: biological_process 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. synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process created_by: jl creation_date: 2012-09-19T15:05:24Z [Term] id: GO:0016301 name: kinase activity def: "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [ISBN:0198506732] comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term. synonym: "phosphokinase activity" EXACT [] xref: Reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm" xref: Reactome:R-HSA-6788867 "FN3K phosphorylates ketosamines" is_a: GO:0003674 ! molecular_function [Term] id: IAO:0000027 name: data item is_a: IAO:0000030 ! information content entity property_value: IAO:0000111 "data item" xsd:string [Term] id: IAO:0000030 name: information content entity is_a: BFO:0000031 property_value: IAO:0000111 "information content entity" xsd:string [Term] id: IAO:0000078 name: curation status specification def: "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." [] is_a: IAO:0000102 ! data about an ontology part property_value: IAO:0000111 "curation status specification" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000116 "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" xsd:string property_value: IAO:0000117 "PERSON:Bill Bug" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: IAO:0000119 "OBI_0000266" xsd:string [Term] id: IAO:0000102 name: data about an ontology part def: "Data about an ontology part is a data item about a part of an ontology, for example a term" [] is_a: IAO:0000027 ! data item property_value: IAO:0000111 "data about an ontology part" xsd:string property_value: IAO:0000117 "Person:Alan Ruttenberg" xsd:string [Term] id: IAO:0000225 name: obsolescence reason specification def: "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." [] is_a: IAO:0000102 ! data about an ontology part property_value: IAO:0000111 "obsolescence reason specification" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000116 "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." xsd:string property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string property_value: IAO:0000117 "PERSON: Melanie Courtot" xsd:string [Term] id: IAO:0000409 name: denotator type def: "A denotator type indicates how a term should be interpreted from an ontological perspective." [] is_a: IAO:0000102 ! data about an ontology part property_value: IAO:0000111 "denotator type" xsd:string property_value: IAO:0000112 "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are \"natural kinds\" and the latter arbitrary collections of entities." xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Barry Smith, Werner Ceusters" xsd:string [Term] id: PATO:0000001 name: quality def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] is_a: BFO:0000020 ! specifically dependent continuant [Typedef] id: BFO:0000062 name: preceded by def: "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco property_value: http://purl.org/dc/elements/1.1/source http://www.obofoundry.org/ro/#OBO_REL:preceded_by xsd:string property_value: IAO:0000111 "preceded by" xsd:string property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string property_value: IAO:0000118 "is preceded by" xsd:string property_value: IAO:0000118 "preceded_by" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: part_of BFO:0000062 is_transitive: true is_a: RO:0002086 ! ends after inverse_of: BFO:0000063 ! precedes [Typedef] id: BFO:0000063 name: precedes def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco property_value: IAO:0000111 "precedes" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: part_of BFO:0000063 is_transitive: true is_a: RO:0002222 ! temporally related to [Typedef] id: BSPO:0000114 name: lateral to def: "X lateral to y if x is further from the midsagittal plane than y." [] is_transitive: true inverse_of: BSPO:0000115 ! medial to created_by: Jennifer Girón creation_date: 2021-04-21T01:01:01Z [Typedef] id: BSPO:0000115 name: medial to name: X medial to y if x is closer to the midsagittal plane than y. is_transitive: true created_by: Jennifer Girón creation_date: 2021-04-21T01:01:01Z [Typedef] id: BSPO:0001102 name: parallel to def: "x is parallel t y iff x and y are lines or planes which when extended indefinitely do not cross." [BSPO:curators] [Typedef] id: BSPO:0020001 name: in central side of def: "X in_central_side Y <=> if Y is subdivided into left and right portions around some median divisor, all parts of X are closer to the median divisor than the outermost lateral sides." [BSPO:cjm] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6523-4866 property_value: IAO:0000116 "This was migrated from http://purl.obolibrary.org/obo/uberon/core#in_central_side_of in Uberon." xsd:string property_value: seeAlso BSPO:0000059 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern is_a: part_of ! part of [Typedef] id: RO:0000052 name: characteristic of def: "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." [] comment: Note that this relation was previously called "inheres in", but was changed to be called "characteristic of" because BFO2 uses "inheres in" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing. property_value: IAO:0000111 "inheres in" xsd:string property_value: IAO:0000112 "this fragility is a characteristic of this vase" xsd:string property_value: IAO:0000112 "this red color is a characteristic of this apple" xsd:string property_value: IAO:0000118 "inheres_in" xsd:string property_value: RO:0001900 RO:0001901 is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: RO:0000053 ! has characteristic [Typedef] id: RO:0000053 name: has characteristic def: "Inverse of characteristic_of" [] property_value: IAO:0000111 "bearer of" xsd:string property_value: IAO:0000112 "this apple is bearer of this red color" xsd:string property_value: IAO:0000112 "this vase is bearer of this fragility" xsd:string property_value: IAO:0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string property_value: IAO:0000118 "bearer_of" xsd:string property_value: IAO:0000118 "is bearer of" xsd:string property_value: RO:0001900 RO:0001901 range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] id: RO:0000056 name: participates in def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] property_value: IAO:0000111 "participates in" xsd:string property_value: IAO:0000112 "this blood clot participates in this blood coagulation" xsd:string property_value: IAO:0000112 "this input material (or this output material) participates in this process" xsd:string property_value: IAO:0000112 "this investigator participates in this investigation" xsd:string property_value: IAO:0000118 "participates_in" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000003 ! occurrent inverse_of: RO:0000057 ! has participant [Typedef] id: RO:0000057 name: has participant def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] property_value: http://purl.org/dc/elements/1.1/source http://www.obofoundry.org/ro/#OBO_REL:has_participant xsd:string property_value: IAO:0000111 "has participant" xsd:string property_value: IAO:0000112 "this blood coagulation has participant this blood clot" xsd:string property_value: IAO:0000112 "this investigation has participant this investigator" xsd:string property_value: IAO:0000112 "this process has participant this input material (or this output material)" xsd:string property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string property_value: IAO:0000118 "has_participant" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000002 ! continuant holds_over_chain: has_part RO:0000057 [Typedef] id: RO:0000079 name: function of def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. property_value: IAO:0000112 "this catalysis function is a function of this enzyme" xsd:string property_value: IAO:0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string property_value: IAO:0000118 "function_of" xsd:string property_value: IAO:0000118 "is function of" xsd:string domain: BFO:0000034 ! function is_a: RO:0000052 ! characteristic of inverse_of: RO:0000085 ! has function [Typedef] id: RO:0000080 name: quality of def: "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. property_value: IAO:0000112 "this red color is a quality of this apple" xsd:string property_value: IAO:0000116 "A quality inheres in its bearer at all times for which the quality exists." xsd:string property_value: IAO:0000118 "is quality of" xsd:string property_value: IAO:0000118 "quality_of" xsd:string is_a: RO:0000052 ! characteristic of inverse_of: RO:0000086 ! has quality [Typedef] id: RO:0000081 name: role of def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. property_value: IAO:0000112 "this investigator role is a role of this person" xsd:string property_value: IAO:0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string property_value: IAO:0000118 "is role of" xsd:string property_value: IAO:0000118 "role_of" xsd:string is_a: RO:0000052 ! characteristic of inverse_of: RO:0000087 ! has role [Typedef] id: RO:0000085 name: has function def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] property_value: IAO:0000112 "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)" xsd:string property_value: IAO:0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string property_value: IAO:0000118 "has_function" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000034 ! function is_a: RO:0000053 ! has characteristic [Typedef] id: RO:0000086 name: has quality def: "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" [] property_value: IAO:0000112 "this apple has quality this red color" xsd:string property_value: IAO:0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string property_value: IAO:0000118 "has_quality" xsd:string range: BFO:0000019 ! quality is_a: RO:0000053 ! has characteristic [Typedef] id: RO:0000087 name: has role def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] property_value: IAO:0000112 "this person has role this investigator role (more colloquially: this person has this role of investigator)" xsd:string property_value: IAO:0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string property_value: IAO:0000118 "has_role" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000023 ! role is_a: RO:0000053 ! has characteristic [Typedef] id: RO:0000091 name: has disposition def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] domain: BFO:0000004 ! independent continuant range: BFO:0000016 ! disposition is_a: RO:0000053 ! has characteristic inverse_of: RO:0000092 ! disposition of [Typedef] id: RO:0000092 name: disposition of def: "inverse of has disposition" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. subset: RO:0002259 is_a: RO:0000052 ! characteristic of [Typedef] id: RO:0002013 name: has regulatory component activity def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] is_a: RO:0002017 ! has component activity is_a: RO:0002334 ! regulated by created_by: dos creation_date: 2017-05-24T09:30:46Z [Typedef] id: RO:0002014 name: has negative regulatory component activity def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. is_a: RO:0002013 ! has regulatory component activity is_a: RO:0002335 ! negatively regulated by created_by: dos creation_date: 2017-05-24T09:31:01Z [Typedef] id: RO:0002015 name: has positive regulatory component activity def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. is_a: RO:0002013 ! has regulatory component activity is_a: RO:0002336 ! positively regulated by created_by: dos creation_date: 2017-05-24T09:31:17Z [Typedef] id: RO:0002017 name: has component activity comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. is_a: RO:0002018 ! has component process created_by: dos creation_date: 2017-05-24T09:44:33Z [Typedef] id: RO:0002018 name: has component process def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] domain: BFO:0000015 ! process range: BFO:0000015 ! process is_a: RO:0002180 ! has component created_by: dos creation_date: 2017-05-24T09:49:21Z [Typedef] id: RO:0002022 name: directly regulated by comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="GOC:dos"} is_a: RO:0002334 ! regulated by inverse_of: RO:0002578 ! directly regulates created_by: dos creation_date: 2017-09-17T13:52:24Z [Typedef] id: RO:0002023 name: directly negatively regulated by def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [GOC:dos] is_a: RO:0002022 ! directly regulated by inverse_of: RO:0002630 ! directly negatively regulates created_by: dos creation_date: 2017-09-17T13:52:38Z [Typedef] id: RO:0002024 name: directly positively regulated by def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [GOC:dos] is_a: RO:0002022 ! directly regulated by inverse_of: RO:0002629 ! directly positively regulates created_by: dos creation_date: 2017-09-17T13:52:47Z [Typedef] id: RO:0002025 name: has effector activity def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [GOC:dos] comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. is_functional: true is_a: RO:0002017 ! has component activity created_by: dos creation_date: 2017-09-22T14:14:36Z [Typedef] id: RO:0002086 name: ends after comment: X ends_after Y iff: end(Y) before_or_simultaneous_with end(X) subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string is_transitive: true is_a: RO:0002222 ! temporally related to [Typedef] id: RO:0002087 name: immediately preceded by comment: X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y) property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "starts_at_end_of" xsd:string is_a: BFO:0000062 ! preceded by inverse_of: RO:0002090 ! immediately precedes [Typedef] id: RO:0002090 name: immediately precedes comment: X immediately_precedes_Y iff: end(X) simultaneous_with start(Y) subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "ends_at_start_of" xsd:string property_value: IAO:0000118 "meets" xsd:string property_value: RO:0002575 BFO:0000063 is_a: BFO:0000063 ! precedes [Typedef] id: RO:0002163 name: spatially disjoint from def: "A is spatially_disjoint_from B if and only if they have no parts in common" [] subset: ro-eco property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000116 "There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. " xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: IAO:0000232 "Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy" xsd:string property_value: RO:0001900 RO:0001901 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Part-disjointness-Design-Pattern xsd:anyURI is_a: RO:0002323 ! mereotopologically related to expand_expression_to: "BFO_0000051 exactly 0 (BFO_0000050 some ?Y)" [] [Typedef] id: RO:0002180 name: has component def: "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] subset: ro-eco property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000116 "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." xsd:string property_value: IAO:0000232 "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." xsd:string property_value: RO:0001900 RO:0001901 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:Componency is_a: has_part ! has part [Typedef] id: RO:0002211 name: regulates def: "p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 https://orcid.org/0000-0001-7476-6306 property_value: IAO:0000117 https://orcid.org/0000-0002-3837-8864 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GO" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Regulation precludes parthood; the regulatory process may not be within the regulated process." xsd:string property_value: IAO:0000589 "regulates (processual)" xsd:string property_value: IAO:0000600 "false" xsd:boolean domain: BFO:0000015 ! process range: BFO:0000015 ! process holds_over_chain: RO:0002578 RO:0002578 is_transitive: true is_a: RO:0002411 ! causally upstream of inverse_of: RO:0002334 ! regulated by transitive_over: RO:0002025 ! has effector activity [Typedef] id: RO:0002212 name: negatively regulates def: "p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "negatively regulates (process to process)" xsd:string property_value: RO:0004050 RO:0002211 is_a: RO:0002211 ! regulates is_a: RO:0002305 ! causally upstream of, negative effect inverse_of: RO:0002335 ! negatively regulated by [Typedef] id: RO:0002213 name: positively regulates def: "p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "positively regulates (process to process)" xsd:string property_value: RO:0004049 RO:0002211 holds_over_chain: RO:0002212 RO:0002212 is_transitive: true is_a: RO:0002211 ! regulates is_a: RO:0002304 ! causally upstream of, positive effect inverse_of: RO:0002336 ! positively regulated by [Typedef] id: RO:0002215 name: capable of def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco property_value: IAO:0000112 "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" xsd:string property_value: IAO:0000112 "osteoclast SubClassOf 'capable of' some 'bone resorption'" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "has function realized in" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20123131 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/21208450 property_value: IAO:0000232 "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000015 ! process is_a: RO:0002216 ! capable of part of [Typedef] id: RO:0002216 name: capable of part of def: "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "has function in" xsd:string property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/reflexivity/ holds_over_chain: RO:0002215 part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco property_value: http://purl.org/dc/terms/source https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 https://en.wikipedia.org/wiki/Allen%27s_interval_algebra property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent [Typedef] id: RO:0002233 name: has input def: "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "consumes" xsd:string domain: BFO:0000015 ! process is_a: RO:0000057 ! has participant inverse_of: RO:0002352 ! input of [Typedef] id: RO:0002263 name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000112 "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." xsd:string property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of holds_over_chain: RO:0002327 RO:0002411 is_a: RO:0002264 ! acts upstream of or within [Typedef] id: RO:0002264 name: acts upstream of or within def: "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: IAO:0000112 "A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway." xsd:string property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within holds_over_chain: RO:0002327 RO:0002418 is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002304 name: causally upstream of, positive effect def: "p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q." [] comment: holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004049 RO:0002411 is_a: RO:0002411 ! causally upstream of is_a: RO:0004047 ! causally upstream of or within, positive effect [Typedef] id: RO:0002305 name: causally upstream of, negative effect def: "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004050 RO:0002411 is_a: RO:0002411 ! causally upstream of is_a: RO:0004046 ! causally upstream of or within, negative effect [Typedef] id: RO:0002314 name: characteristic of part of def: "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." [] property_value: IAO:0000116 "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "inheres in part of" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: RO:0001900 RO:0001901 property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/reflexivity/ holds_over_chain: RO:0000052 part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: RO:0002502 ! depends on transitive_over: part_of ! part of [Typedef] id: RO:0002323 name: mereotopologically related to def: "A mereological relationship or a topological relationship" [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" xsd:string property_value: RO:0001900 RO:0001901 [Typedef] id: RO:0002327 name: enables def: "c enables p iff c is capable of p and c acts to execute p." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000112 "a particular instances of akt-2 enables some instance of protein kinase activity" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "catalyzes" xsd:string property_value: IAO:0000118 "executes" xsd:string property_value: IAO:0000118 "has" xsd:string property_value: IAO:0000118 "is catalyzing" xsd:string property_value: IAO:0000118 "is executing" xsd:string property_value: IAO:0000232 "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." xsd:string is_a: RO:0002215 ! capable of inverse_of: RO:0002333 ! enabled by transitive_over: has_part ! has part transitive_over: RO:0002017 ! has component activity [Typedef] id: RO:0002328 name: functionally related to def: "A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "This is a grouping relation that collects relations used for the purpose of connecting structure and function" xsd:string [Typedef] id: RO:0002329 name: part of structure that is capable of def: "this relation holds between c and p when c is part of some c', and c' is capable of p." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "false" xsd:boolean holds_over_chain: part_of RO:0002215 {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002331 name: involved in def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "actively involved in" xsd:string property_value: IAO:0000118 "enables part of" xsd:string property_value: seeAlso Involved:in holds_over_chain: RO:0002327 part_of is_a: RO:0000056 ! participates in is_a: RO:0002431 ! involved in or involved in regulation of transitive_over: part_of ! part of [Typedef] id: RO:0002333 name: enabled by def: "inverse of enables" [] subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0000057 ! has participant is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002334 name: regulated by def: "inverse of regulates" [] subset: RO:0002259 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000589 "regulated by (processual)" xsd:string domain: BFO:0000015 ! process range: BFO:0000015 ! process is_transitive: true is_a: RO:0002427 ! causally downstream of or within [Typedef] id: RO:0002335 name: negatively regulated by def: "inverse of negatively regulates" [] subset: RO:0002259 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002334 ! regulated by [Typedef] id: RO:0002336 name: positively regulated by def: "inverse of positively regulates" [] subset: RO:0002259 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002334 ! regulated by [Typedef] id: RO:0002352 name: input of def: "inverse of has input" [] subset: ro-eco subset: RO:0002259 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0000056 ! participates in is_a: RO:0002328 ! functionally related to [Typedef] id: RO:0002404 name: causally downstream of def: "inverse of upstream of" [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: BFO:0000062 ! preceded by is_a: RO:0002427 ! causally downstream of or within inverse_of: RO:0002411 ! causally upstream of [Typedef] id: RO:0002405 name: immediately causally downstream of property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002087 ! immediately preceded by is_a: RO:0002404 ! causally downstream of inverse_of: RO:0002412 ! immediately causally upstream of [Typedef] id: RO:0002407 name: indirectly positively regulates def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "indirectly activates" xsd:string property_value: RO:0002579 RO:0002213 holds_over_chain: RO:0002409 RO:0002409 holds_over_chain: RO:0002629 RO:0002407 holds_over_chain: RO:0002629 RO:0002629 is_transitive: true is_a: RO:0002213 ! positively regulates is_a: RO:0012012 ! indirectly regulates transitive_over: RO:0002629 ! directly positively regulates [Typedef] id: RO:0002409 name: indirectly negatively regulates def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "indirectly inhibits" xsd:string property_value: RO:0002579 RO:0002212 holds_over_chain: RO:0002630 RO:0002409 holds_over_chain: RO:0002630 RO:0002630 is_transitive: true is_a: RO:0002212 ! negatively regulates is_a: RO:0012012 ! indirectly regulates transitive_over: RO:0002630 ! directly negatively regulates [Typedef] id: RO:0002410 name: causally related to def: "relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause." [https://en.wikipedia.org/wiki/Causality] property_value: IAO:0000116 "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string [Typedef] id: RO:0002411 name: causally upstream of def: "p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_transitive: true is_a: BFO:0000063 ! precedes is_a: RO:0002418 ! causally upstream of or within [Typedef] id: RO:0002412 name: immediately causally upstream of def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0002575 RO:0002411 is_a: RO:0002090 ! immediately precedes is_a: RO:0002411 ! causally upstream of [Typedef] id: RO:0002418 name: causally upstream of or within def: "p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q." [] synonym: "affects" RELATED [] property_value: IAO:0000116 "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "influences (processual)" xsd:string is_transitive: true is_a: RO:0002501 ! causal relation between processes inverse_of: RO:0002427 ! causally downstream of or within [Typedef] id: RO:0002427 name: causally downstream of or within def: "inverse of causally upstream of or within" [] subset: RO:0002259 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_transitive: true is_a: RO:0002501 ! causal relation between processes [Typedef] id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: RO:0002327 RO:0002211 holds_over_chain: RO:0002331 RO:0002211 is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of [Typedef] id: RO:0002429 name: involved in positive regulation of def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0004049 RO:0002428 holds_over_chain: RO:0002327 RO:0002213 holds_over_chain: RO:0002331 RO:0002213 is_a: RO:0002428 ! involved in regulation of [Typedef] id: RO:0002430 name: involved in negative regulation of def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0004050 RO:0002428 holds_over_chain: RO:0002327 RO:0002212 holds_over_chain: RO:0002331 RO:0002212 is_a: RO:0002428 ! involved in regulation of [Typedef] id: RO:0002431 name: involved in or involved in regulation of def: "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" [] property_value: IAO:0000116 "OWL does not allow defining object properties via a Union" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "involved in or reguates" xsd:string is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002328 ! functionally related to is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002434 name: interacts with def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] subset: ro-eco synonym: "in pairwise interaction with" EXACT [] property_value: closeMatch http://purl.obolibrary.org/obo/MI_0914 xsd:anyURI property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." xsd:string property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ xsd:anyURI domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_symmetric: true [Typedef] id: RO:0002436 name: molecularly interacts with def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] property_value: closeMatch http://purl.obolibrary.org/obo/MI_0915 xsd:anyURI property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "binds" xsd:string property_value: IAO:0000118 "molecularly binds with" xsd:string property_value: seeAlso ECO:0000353 is_symmetric: true is_a: RO:0002434 ! interacts with [Typedef] id: RO:0002447 name: phosphorylates property_value: IAO:0000116 "Axiomatization to GO to be added later" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." xsd:string is_a: RO:0002436 ! molecularly interacts with [Typedef] id: RO:0002448 name: directly regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] synonym: "molecularly controls" EXACT [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002436 ! molecularly interacts with is_a: RO:0011002 ! regulates activity of [Typedef] id: RO:0002449 name: directly negatively regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] synonym: "molecularly decreases activity of" EXACT [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 property_value: IAO:0000118 "directly inhibits" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002448 ! directly regulates activity of [Typedef] id: RO:0002450 name: directly positively regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] synonym: "molecularly increases activity of" EXACT [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 property_value: IAO:0000118 "directly activates" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002448 ! directly regulates activity of [Typedef] id: RO:0002464 name: helper property (not for use in curation) property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." xsd:string [Typedef] id: RO:0002481 name: is kinase activity property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002500 name: causal agent in process def: "A relationship between a material entity and a process where the material entity has some causal role that influences the process" [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_a: RO:0002595 ! causal relation between material entity and a process inverse_of: RO:0002608 ! process has causal agent [Typedef] id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002502 name: depends on property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: seeAlso BFO:0000169 [Typedef] id: RO:0002506 name: causal relation between entities property_value: IAO:0000116 "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002559 name: causally influenced by property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influenced by (entity-centric)" xsd:string is_a: RO:0002506 ! causal relation between entities inverse_of: RO:0002566 ! causally influences [Typedef] id: RO:0002563 name: interaction relation helper property property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ xsd:anyURI is_a: RO:0002464 ! helper property (not for use in curation) [Typedef] id: RO:0002564 name: molecular interaction relation helper property property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002563 ! interaction relation helper property [Typedef] id: RO:0002566 name: causally influences def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influences (entity-centric)" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: RO:0002506 ! causal relation between entities [Typedef] id: RO:0002578 name: directly regulates def: "p directly regulates q iff p is immediately causally upstream of q and p regulates q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly regulates (processual)" xsd:string property_value: RO:0002575 RO:0002211 is_a: RO:0002211 ! regulates is_a: RO:0002412 ! immediately causally upstream of [Typedef] id: RO:0002584 name: has part structure that is capable of def: "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" [] property_value: IAO:0000112 "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: has_part RO:0002215 is_a: RO:0002328 ! functionally related to is_a: RO:0002595 ! causal relation between material entity and a process [Typedef] id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: IAO:0000116 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations domain: BFO:0000040 ! material entity range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002596 name: capable of regulating def: "Holds between c and p if and only if c is capable of some activity a, and a regulates p." [] property_value: IAO:0000112 "pyrethroid -> growth" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations holds_over_chain: RO:0002215 RO:0002211 is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002597 name: capable of negatively regulating def: "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations holds_over_chain: RO:0002215 RO:0002212 is_a: RO:0002596 ! capable of regulating [Typedef] id: RO:0002598 name: capable of positively regulating def: "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." [] property_value: IAO:0000112 "renin -> arteriolar smooth muscle contraction" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations holds_over_chain: RO:0002215 RO:0002213 is_a: RO:0002596 ! capable of regulating [Typedef] id: RO:0002608 name: process has causal agent def: "Inverse of 'causal agent in process'" [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002629 name: directly positively regulates def: "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly positively regulates (process to process)" xsd:string property_value: RO:0004049 RO:0002578 is_a: RO:0002213 ! positively regulates is_a: RO:0002578 ! directly regulates [Typedef] id: RO:0002630 name: directly negatively regulates def: "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly negatively regulates (process to process)" xsd:string property_value: RO:0004050 RO:0002578 is_a: RO:0002212 ! negatively regulates is_a: RO:0002578 ! directly regulates [Typedef] id: RO:0004031 name: enables subfunction def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] holds_over_chain: RO:0002327 has_part is_a: RO:0002328 ! functionally related to created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-25T23:20:13Z [Typedef] id: RO:0004032 name: acts upstream of or within, positive effect subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: RO:0004049 RO:0002264 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within,_positive_effect holds_over_chain: RO:0002327 RO:0004047 is_a: RO:0002264 ! acts upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:49:30Z [Typedef] id: RO:0004033 name: acts upstream of or within, negative effect subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: RO:0004050 RO:0002264 holds_over_chain: RO:0002327 RO:0004046 is_a: RO:0002264 ! acts upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:49:51Z [Typedef] id: RO:0004034 name: acts upstream of, positive effect def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: RO:0004049 RO:0002263 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of,_positive_effect holds_over_chain: RO:0002327 RO:0002304 is_a: RO:0002263 ! acts upstream of is_a: RO:0004032 ! acts upstream of or within, positive effect created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:53:14Z [Typedef] id: RO:0004035 name: acts upstream of, negative effect def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: RO:0004050 RO:0002263 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of,_negative_effect holds_over_chain: RO:0002327 RO:0002305 is_a: RO:0002263 ! acts upstream of is_a: RO:0004033 ! acts upstream of or within, negative effect created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:53:22Z [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect property_value: RO:0004050 RO:0002418 is_a: RO:0002418 ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:05Z [Typedef] id: RO:0004047 name: causally upstream of or within, positive effect property_value: RO:0004049 RO:0002418 is_a: RO:0002418 ! causally upstream of or within created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z [Typedef] id: RO:0011002 name: regulates activity of def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002566 ! causally influences [Typedef] id: RO:0012011 name: indirectly causally upstream of def: "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." [] is_a: RO:0002411 ! causally upstream of created_by: pg creation_date: 2022-09-26T06:07:17Z [Typedef] id: RO:0012012 name: indirectly regulates def: "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." [] is_a: RO:0002211 ! regulates is_a: RO:0012011 ! indirectly causally upstream of created_by: pg creation_date: 2022-09-26T06:08:01Z [Typedef] id: RO:0017001 name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] property_value: IAO:0000112 "A diagnostic testing device utilizes a specimen." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0001-9625-1899 property_value: IAO:0000117 https://orcid.org/0000-0003-2620-0345 property_value: IAO:0000232 "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." xsd:string property_value: IAO:0000232 "See github ticket https://github.com/oborel/obo-relations/issues/497" xsd:string holds_over_chain: RO:0002215 RO:0002233 creation_date: 2021-11-08T12:00:00Z [Typedef] id: RO:0019000 name: regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 domain: BFO:0000015 ! process range: PATO:0000001 ! quality holds_over_chain: RO:0002211 RO:0019000 is_a: RO:0002410 ! causally related to [Typedef] id: RO:0019001 name: positively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: RO:0002213 RO:0019001 is_a: RO:0019000 ! regulates characteristic [Typedef] id: RO:0019002 name: negatively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: RO:0002212 RO:0019001 holds_over_chain: RO:0002213 RO:0019002 is_a: RO:0019000 ! regulates characteristic [Typedef] id: aboral_to name: aboral to def: "nearer to the aboral opening of the organism, on the oral-aboral axis." [BSPO:cjm] xref: BSPO:0015202 is_transitive: true [Typedef] id: adjacent_to name: adjacent to def: "x adjacent to y if and only if x and y share a boundary." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 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 {http://www.w3.org/2000/01/rdf-schema#seeAlso="issuecomment-218584934"} 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:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0001900 RO:0001901 domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002163 ! spatially disjoint from [Typedef] id: anatomical_relation name: anatomical relation xref: BSPO:0000095 property_value: seeAlso FBql:00005860 is_obsolete: true [Typedef] id: anterior_to name: anterior to 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 extends through an organism from head end to opposite end of body or tail." [BSPO:cjm] synonym: "rostral_to" EXACT [] xref: BSPO:0000096 property_value: seeAlso FBcv:0000039 property_value: seeAlso FBql:00005863 is_transitive: true inverse_of: posterior_to ! posterior to [Typedef] id: anteriormost_part_of name: anteriormost part of def: "x anteriormost_part_of y iff x part_of y and there is no z which is part_of y and is more anterior than x but not part_of x; x is adjacent to the anterior boundary of y" [https://orcid.org/0000-0003-2699-3066] xref: BSPO:0030004 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2699-3066 is_a: in_anterior_side_of ! in anterior side of [Typedef] id: approximately_perpendicular_to name: approximately perpendicular to def: "Crosses at an angle that is 90 degrees, or close to 90 degrees. In any non-linear organism, the main axes are rarely perpendicular when taken through the organism as a whole." [BSPO:cjm] xref: BSPO:0000104 domain: BSPO:0000010 ! anatomical axis range: BSPO:0000010 ! anatomical axis [Typedef] id: contralateral_to name: contralateral to 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: opposite_to ! opposite to [Typedef] id: deep_to name: deep to 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: superficial_to ! superficial to [Typedef] id: distal_to name: distal to 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: seeAlso FBcv:0000040 property_value: seeAlso FBql:00005867 is_transitive: true inverse_of: proximal_to ! proximal to [Typedef] id: distalmost_part_of name: distalmost part of 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 is_a: in_distal_side_of ! in distal side of [Typedef] id: dorsal_to name: dorsal to 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 extends through an organism from back (e.g. spinal column) to front (e.g. belly)." [BSPO:cjm] xref: BSPO:0000098 property_value: seeAlso FBcv:0000041 property_value: seeAlso FBql:00005865 is_transitive: true inverse_of: ventral_to ! ventral to [Typedef] id: dorsalmost_part_of name: dorsalmost part of def: "x dorsalmost_part_of y iff x part_of y and there is no z which is part_of y and is more dorsal than x but not part_of x; x is adjacent to the dorsal boundary of y" [https://orcid.org/0000-0003-2699-3066] xref: BSPO:0030003 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2699-3066 is_a: in_dorsal_side_of ! in dorsal side of [Typedef] id: finishes_axis name: finishes axis 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: follows_axis name: follows axis xref: BSPO:0015002 range: BSPO:0000010 ! anatomical axis [Typedef] id: has_axis name: has axis xref: BSPO:0015003 [Typedef] id: has_end_point name: has end point 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 range: CARO:0000000 ! anatomical entity [Typedef] id: has_part name: has part def: "a core relation that holds between a whole and its part" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000051 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 http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" 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: RO:0001900 RO:0001901 is_transitive: true is_a: overlaps ! overlaps [Typedef] id: has_start_point name: has start point 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 property_value: IAO:0000116 "This relationship was originally called http://purl.obolibrary.org/obo/#_has_start_point, but was renamed because of the non-standard IRI syntax." xsd:string domain: BSPO:0000010 ! anatomical axis range: CARO:0000000 ! anatomical entity [Typedef] id: immediately_anterior_to name: immediately anterior to def: "x immediately anterior to y iff x anterior to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015009 is_a: anterior_to ! anterior to inverse_of: immediately_posterior_to ! immediately posterior to [Typedef] id: immediately_deep_to name: immediately deep to def: "x immediately deep to y iff x deep_to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0001107 is_a: deep_to ! deep to inverse_of: immediately_superficial_to ! immediately superficial to [Typedef] id: immediately_distal_to name: immediately distal to def: "x immediately distal to y iff x distal to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015010 is_a: distal_to ! distal to inverse_of: immediately_proximal_to ! immediately proximal to [Typedef] id: immediately_dorsal_to name: immediately dorsal to def: "x immediately dorsal to y iff x dorsal to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015011 is_a: dorsal_to ! dorsal to inverse_of: immediately_ventral_to ! immediately ventral to [Typedef] id: immediately_left_of name: immediately left of def: "x immediately left of y iff x left_of y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015016 is_a: left_of ! left of inverse_of: immediately_right_of ! immediately right of [Typedef] id: immediately_posterior_to name: immediately posterior to def: "x immediately posterior to y iff x posterior_to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015012 property_value: seeAlso https://github.com/obophenotype/uberon/issues/2453 is_a: adjacent_to ! adjacent to is_a: posterior_to ! posterior to [Typedef] id: immediately_proximal_to name: immediately proximal to def: "x immediately proximal to y iff x proximal to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015013 is_a: proximal_to ! proximal to [Typedef] id: immediately_right_of name: immediately right of def: "x immediately right of y iff x right of y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015017 is_a: right_of ! right of [Typedef] id: immediately_superficial_to name: immediately superficial to def: "x immediately superficial to y iff x superficial to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015014 property_value: seeAlso https://github.com/obophenotype/uberon/issues/2453 is_a: adjacent_to ! adjacent to is_a: superficial_to ! superficial to [Typedef] id: immediately_ventral_to name: immediately ventral to def: "x immediately ventral to y iff x ventral to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015015 is_a: ventral_to ! ventral to [Typedef] id: in_anterior_side_of name: in anterior side of 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: part_of ! part of [Typedef] id: in_deep_part_of name: in deep part of 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: part_of ! part of [Typedef] id: in_distal_side_of name: in distal side of 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: part_of ! part of [Typedef] id: in_dorsal_side_of name: in dorsal side of def: "X dorsal side of Y <=> if Y is subdivided into two dorsal and ventral portions, X is part of the dorsal portion." [BSPO:cjm] xref: BSPO:0015101 is_a: part_of ! part of [Typedef] id: in_lateral_side_of name: in lateral side of 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 property_value: seeAlso https://github.com/obophenotype/uberon/issues/2453 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: part_of ! part of disjoint_from: BSPO:0020001 ! in central side of [Typedef] id: in_left_side_of name: in left side of 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 xref: NCIT:C25229 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: in_lateral_side_of ! in lateral side of disjoint_from: in_right_side_of ! in right side of [Typedef] id: in_medial_side_of name: in medial side of def: "X medial side of Y <=> if Y is subdivided into two medial and lateral portions, X is part of the medial portion." [https://orcid.org/0000-0003-2699-3066] xref: BSPO:0030006 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2699-3066 is_a: part_of ! part of [Typedef] id: in_posterior_side_of name: in posterior side of 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: part_of ! part of [Typedef] id: in_proximal_side_of name: in proximal side of 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: part_of ! part of [Typedef] id: in_right_side_of name: in right side of 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 xref: NCIT:C25228 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: in_lateral_side_of ! in lateral side of [Typedef] id: in_superficial_part_of name: in superficial part of 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: part_of ! part of [Typedef] id: in_ventral_side_of name: in ventral side of def: "X ventral side of Y <=> if Y is subdivided into two dorsal and ventral portions, X is part of the ventral portion." [BSPO:cjm] xref: BSPO:0015102 is_a: part_of ! part of [Typedef] id: intersects_midsagittal_plane_of name: intersects midsagittal plane of def: "X intersects median plane of iff X crosses the midine plane of Y." [] xref: BSPO:0005001 is_a: part_of ! part of [Typedef] id: ipsilateral_to name: ipsilateral to 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 disjoint_from: contralateral_to ! contralateral to [Typedef] id: lateralmost_part_of name: lateralmost part of def: "x lateralmost_part_of y iff x part_of y and there is no z which is part_of y and is more lateral than x but not part_of x; x is adjacent to the lateral boundary of y" [https://orcid.org/0000-0003-2699-3066] xref: BSPO:0030005 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2699-3066 is_a: in_lateral_side_of ! in lateral side of [Typedef] id: left_of name: left of 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: right_of ! right of [Typedef] id: medialmost_part_of name: medialmost part of def: "x medialmost_part_of y iff x part_of y and there is no z which is part_of y and is more medial than x but not part_of x; x is adjacent to the medial boundary of y" [https://orcid.org/0000-0003-2699-3066] xref: BSPO:0030007 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0003-2699-3066 is_a: in_medial_side_of ! in medial side of [Typedef] id: obsolete_surrounded_by name: obsolete surrounded_by xref: BSPO:0000109 is_obsolete: true replaced_by: RO:0002219 [Typedef] id: obsolete_surrounds name: obsolete surrounds xref: BSPO:0000101 property_value: seeAlso FBcv:0000048 property_value: seeAlso FBql:00005861 is_obsolete: true replaced_by: RO:0002221 [Typedef] id: opposite_to name: opposite to def: "Direcly opposite to. i.e. on the opposite side through the axis." [BSPO:cjm] xref: BSPO:0000113 [Typedef] id: oral_to name: oral to def: "nearer to the oral opening of the organism, on the oral-aboral axis." [BSPO:cjm] xref: BSPO:0015201 is_transitive: true [Typedef] id: orthogonal_to name: orthogonal to def: "crossing at right angles" [BSPO:cjm] xref: BSPO:0015005 domain: BSPO:0000010 ! anatomical axis range: BSPO:0000400 ! anatomical plane [Typedef] id: overlaps name: overlaps def: "x overlaps y if and only if there exists some z such that x has part z and z part of y" [] 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 [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002131 property_value: IAO:0000114 IAO:0000125 property_value: RO:0001900 RO:0001901 holds_over_chain: has_part overlaps holds_over_chain: has_part part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} holds_over_chain: part_of part_of is_symmetric: true is_a: RO:0002323 ! mereotopologically related to transitive_over: part_of ! part of expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" [] [Typedef] id: part_of name: part of def: "a core relation that holds between a part and its whole" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000050 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 http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" 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: RO:0001900 RO:0001901 property_value: RO:0040042 BFO:0000002 property_value: RO:0040042 BFO:0000003 property_value: RO:0040042 BFO:0000004 property_value: RO:0040042 BFO:0000017 property_value: RO:0040042 BFO:0000019 property_value: RO:0040042 BFO:0000020 property_value: RO:0040042 BFO:0000031 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:PartOf property_value: seeAlso http://www.obofoundry.org/ro/#OBO_REL:part_of xsd:string is_transitive: true is_a: overlaps ! overlaps inverse_of: has_part ! has part [Typedef] id: passes_through name: passes through def: "Intersects at two points." [BSPO:cjm] xref: BSPO:0015006 domain: BSPO:0000010 ! anatomical axis [Typedef] id: postaxial_to name: postaxial to 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 is_transitive: true [Typedef] id: postaxialmost_part_of name: postaxialmost part of xref: BSPO:0001115 is_a: part_of ! part of [Typedef] id: posterior_to name: posterior to 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 extends through an organism from head end to opposite end of body or tail." [BSPO:cjm] synonym: "caudal to" NARROW vertebrate [] xref: BSPO:0000099 property_value: seeAlso FBcv:0000045 property_value: seeAlso FBql:00005864 is_transitive: true [Typedef] id: preaxial_to name: preaxial to def: "x preaxial to y iff x is further along the preaxial-postaxial axis than y, towards the front." [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 is_transitive: true [Typedef] id: preaxialmost_part_of name: preaxialmost part of xref: BSPO:0001113 is_a: part_of ! part of [Typedef] id: proximal_to name: proximal to 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 xref: NCIT:C25236 property_value: seeAlso FBcv:0000047 property_value: seeAlso FBql:00005868 is_transitive: true [Typedef] id: proximalmost_part_of name: proximalmost part of 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: in_proximal_side_of ! in proximal side of [Typedef] id: right_of name: right of 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: seeAlso name: see also xref: http://www.w3.org/2000/01/rdf-schema#seeAlso is_metadata_tag: true [Typedef] id: starts_axis name: starts axis 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: superficial_to name: superficial to 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: surface_of name: surface of comment: placeholder. used for relation between anatomical surface and an anatomical side. xref: BSPO:0015008 domain: BSPO:0000005 ! anatomical surface [Typedef] id: ventral_to name: ventral to 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: vicinity_of name: vicinity of xref: BSPO:0000103 property_value: seeAlso FBcv:0000050 property_value: seeAlso FBql:00005862