10:09:2009 09:32 Melissa Haendel spatial based on FBql spatial This is an OWL translation of an ontology whose native representational form is .obo. The translation was performed using the oboInOwl xslt library. For details, see http://www.berkeleybop.org/obo-conv.cgi left side left spatial upper side upper spatial lower side lower spatial deep-superficial gradient (obsolete) was made obsolete because the ID had too many digits spatial deep side deep spatial superficial side superficial spatial anatomical surface to be merged into CARO A 2D surface of an anatomical continuant BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm surface spatial anatomical margin fiat region extending a short distance from the boundary of an object inwards BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm edge margin spatial right side right spatial parasagittal section Sagittal section that divides bilateral body into unequal equal left and right sections. BSPO:mah http://purl.org/obo/owl/BSPO#BSPO_mah spatial midsaggital section Sagittal section that divides bilateral body into equal left and right sections. BSPO:mah http://purl.org/obo/owl/BSPO#BSPO_mah median plane median sagittal plane midsagittal plane spatial FMA:74563 http://purl.org/obo/owl/FMA#FMA_74563 anatomical axis axis directions are defined in terms of axes A straight line through space, intersecting an anatomical entity. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial URL:http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG upper/lower axis An anatomical axis determined by gravity. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial deep/superficial axis spatial anterior/posterior axis An axis that bisects an organism from head end to opposite end of body or tail. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm A-P axis anteroposterior axis AP axis cephalocaudal axis URL:http://en.wikipedia.org/wiki/Anatomical_terms_of_location http://en.wikipedia.org/wiki/Anatomical_terms_of_location craniocaudal axis rostral/caudal rostrocaudal axis spatial apical/basal axis In plants, this is the axis that runs from the shoot to the root. apical/basal longitudinal axis spatial proximal/distal axis from tip of an appendage (distal) to where it joins the body (proximal). URL:http://en.wikipedia.org/wiki/Anatomical_terms_of_location http://en.wikipedia.org/wiki/Anatomical_terms_of_location proximal/distal proximodistal spatial dorsal/ventral axis An axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly). BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm dorsoventral axis spatial left/right axis An axis that bisects an organism from left to right sides of body, through a sagittal section. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm dextro-sinister axis left to right axis spatial transverse section Anatomical section that divides body into anterior and posterior sections. BSPO:mah http://purl.org/obo/owl/BSPO#BSPO_mah axial plane axial section cross-section transverse plane spatial FMA:12247 http://purl.org/obo/owl/FMA#FMA_12247 horizontal section Anatomical section that divides bilateral body into dorsal and ventral sections. BSPO:mah http://purl.org/obo/owl/BSPO#BSPO_mah coronal section frontal section spatial FMA:52810 http://purl.org/obo/owl/FMA#FMA_52810 upper-lower gradient spatial deep-superficial gradient spatial superior side superior spatial apical-basal gradient spatial proximal-distal gradient spatial inferior side inferior spatial antero-dorsal region anterodorsal region spatial antero-ventral region anteroventral region spatial postero-lateral region posterolateral region spatial antero-lateral region anterolateral region spatial postero-dorsal region posterodorsal region spatial upper region spatial lower region spatial deep region spatial superficial region spatial postero-ventral region posteroventral region spatial anterior-most anteriormost spatial posterior-most posteriormost spatial dorsal-most dorsalmost spatial ventral-most ventralmost spatial upper/lower compartment boundary spatial deep/superficial compartment boundary spatial antero-medial margin anteromedial margin spatial apical/basal compartment boundary spatial proximal/distal compartment boundary spatial antero-lateral margin anterolateral margin spatial postero-medial margin posteromedial margin spatial postero-lateral margin postero-lateral margin spatial dorso-medial margin dorso-medial margin spatial ventro-medial margin ventromedial margin spatial antero-medial region anteromedial region spatial anatomical gradient A region defined by change in the value of some quantity per unit of distance across some spatial axis. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial FBql:00005254 http://purl.org/obo/owl/FBql#FBql_00005254 anterior-posterior gradient spatial FBcv:0000142 http://purl.org/obo/owl/FBcv#FBcv_0000142 FBql:00005256 http://purl.org/obo/owl/FBql#FBql_00005256 dorsal-ventral gradient spatial FBcv:0000143 http://purl.org/obo/owl/FBcv#FBcv_0000143 FBql:00005255 http://purl.org/obo/owl/FBql#FBql_00005255 anatomical side An anatomical region bounded by a plane perpendicular to an axis through the middle. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial FBql:00005841 http://purl.org/obo/owl/FBql#FBql_00005841 anterior side anterior rostral spatial FBcv:0000053 http://purl.org/obo/owl/FBcv#FBcv_0000053 FBql:00005848 http://purl.org/obo/owl/FBql#FBql_00005848 posterior side caudal posterior spatial FBcv:0000065 http://purl.org/obo/owl/FBcv#FBcv_0000065 FBql:00005849 http://purl.org/obo/owl/FBql#FBql_00005849 apical side apical spatial FBcv:0000054 http://purl.org/obo/owl/FBcv#FBcv_0000054 FBql:00005854 http://purl.org/obo/owl/FBql#FBql_00005854 basal side The part of the organism attached to a substrate. Axis of symmetry. basal spatial FBcv:0000055 http://purl.org/obo/owl/FBcv#FBcv_0000055 FBql:00005855 http://purl.org/obo/owl/FBql#FBql_00005855 central side central is not an axis direction central spatial FBcv:0000056 http://purl.org/obo/owl/FBcv#FBcv_0000056 FBql:00015851 http://purl.org/obo/owl/FBql#FBql_00015851 contralateral side inherited from flybase cv. not clear how this would be used. Suggest we obsolete, and use the corresponding relation. On the opposite side BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm contralateral spatial FBcv:0000057 http://purl.org/obo/owl/FBcv#FBcv_0000057 FBql:00005851 http://purl.org/obo/owl/FBql#FBql_00005851 proximal side proximal spatial FBcv:0000066 http://purl.org/obo/owl/FBcv#FBcv_0000066 FBql:00005852 http://purl.org/obo/owl/FBql#FBql_00005852 distal side distal spatial FBcv:0000058 http://purl.org/obo/owl/FBcv#FBcv_0000058 FBql:00005853 http://purl.org/obo/owl/FBql#FBql_00005853 dorsal side rename to 'dorsally located'? dorsal spatial FBcv:0000059 http://purl.org/obo/owl/FBcv#FBcv_0000059 FBql:00005842 http://purl.org/obo/owl/FBql#FBql_00005842 postero-medial region posteromedial region spatial ipsilateral side inherited from flybase cv. not clear how this would be used. Suggest we obsolete, and use the corresponding relation. On the same side BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm ipsilateral spatial FBcv:0000062 http://purl.org/obo/owl/FBcv#FBcv_0000062 FBql:00005850 http://purl.org/obo/owl/FBql#FBql_00005850 lateral side lateral spatial FBcv:0000063 http://purl.org/obo/owl/FBcv#FBcv_0000063 FBql:00005844 http://purl.org/obo/owl/FBql#FBql_00005844 medial side a point in the centre of the organism (where the left-right axis intersects the midsagittal plane) medial spatial FBcv:0000064 http://purl.org/obo/owl/FBcv#FBcv_0000064 FBql:00005847 http://purl.org/obo/owl/FBql#FBql_00005847 ventral side ventral spatial FBcv:0000070 http://purl.org/obo/owl/FBcv#FBcv_0000070 FBql:00005843 http://purl.org/obo/owl/FBql#FBql_00005843 dorso-medial region dorsomedial region spatial anatomical region to be merged into CARO A 3D region in space without well-defined compartmental boundaries; for example, the dorsal region of an ectoderm. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial FBql:00005841 http://purl.org/obo/owl/FBql#FBql_00005841 anterior region spatial FBql:00005848 http://purl.org/obo/owl/FBql#FBql_00005848 posterior region spatial FBql:00005849 http://purl.org/obo/owl/FBql#FBql_00005849 apical region spatial FBql:00005854 http://purl.org/obo/owl/FBql#FBql_00005854 basal region spatial FBql:00005855 http://purl.org/obo/owl/FBql#FBql_00005855 central region spatial FBql:00015851 http://purl.org/obo/owl/FBql#FBql_00015851 contralateral region inherited from flybase cv. not clear how this would be used spatial FBql:00005851 http://purl.org/obo/owl/FBql#FBql_00005851 proximal region spatial FBql:00005852 http://purl.org/obo/owl/FBql#FBql_00005852 distal region spatial FBql:00005853 http://purl.org/obo/owl/FBql#FBql_00005853 dorsal region spatial FBql:00005842 http://purl.org/obo/owl/FBql#FBql_00005842 dorso-lateral region dorsolateral region spatial FBql:00005845 http://purl.org/obo/owl/FBql#FBql_00005845 ipsilateral region spatial FBql:00005850 http://purl.org/obo/owl/FBql#FBql_00005850 lateral region spatial FBql:00005844 http://purl.org/obo/owl/FBql#FBql_00005844 medial region spatial FBql:00005847 http://purl.org/obo/owl/FBql#FBql_00005847 ventral region spatial FBql:00005843 http://purl.org/obo/owl/FBql#FBql_00005843 ventro-lateral region This is an example of a composition of two axis positions ventrolateral region spatial FBql:00005846 http://purl.org/obo/owl/FBql#FBql_00005846 anatomical compartment to be merged into CARO spatial FBql:00005873 http://purl.org/obo/owl/FBql#FBql_00005873 anterior compartment spatial FBcv:0000031 http://purl.org/obo/owl/FBcv#FBcv_0000031 FBql:00005874 http://purl.org/obo/owl/FBql#FBql_00005874 compartment boundary spatial FBcv:0000032 http://purl.org/obo/owl/FBcv#FBcv_0000032 FBql:00005878 http://purl.org/obo/owl/FBql#FBql_00005878 dorsal compartment spatial FBcv:0000035 http://purl.org/obo/owl/FBcv#FBcv_0000035 FBql:00005876 http://purl.org/obo/owl/FBql#FBql_00005876 posterior compartment spatial FBcv:0000036 http://purl.org/obo/owl/FBcv#FBcv_0000036 FBql:00005875 http://purl.org/obo/owl/FBql#FBql_00005875 ventral compartment spatial FBcv:0000037 http://purl.org/obo/owl/FBcv#FBcv_0000037 FBql:00005877 http://purl.org/obo/owl/FBql#FBql_00005877 anatomical compartment boundary to be merged into CARO spatial FBql:00005881 http://purl.org/obo/owl/FBql#FBql_00005881 anterior/posterior compartment boundary spatial FBcv:0000033 http://purl.org/obo/owl/FBcv#FBcv_0000033 FBql:00005880 http://purl.org/obo/owl/FBql#FBql_00005880 dorsal/ventral compartment boundary spatial FBcv:0000034 http://purl.org/obo/owl/FBcv#FBcv_0000034 FBql:00005879 http://purl.org/obo/owl/FBql#FBql_00005879 ventro-medial region ventromedial region spatial anterior surface spatial FBql:00005848 http://purl.org/obo/owl/FBql#FBql_00005848 posterior surface spatial FBql:00005849 http://purl.org/obo/owl/FBql#FBql_00005849 apical surface spatial FBql:00005854 http://purl.org/obo/owl/FBql#FBql_00005854 basal surface spatial FBql:00005855 http://purl.org/obo/owl/FBql#FBql_00005855 contralateral surface spatial FBql:00005851 http://purl.org/obo/owl/FBql#FBql_00005851 proximal surface spatial FBql:00005852 http://purl.org/obo/owl/FBql#FBql_00005852 distal surface spatial FBql:00005853 http://purl.org/obo/owl/FBql#FBql_00005853 dorsal surface spatial FBql:00005842 http://purl.org/obo/owl/FBql#FBql_00005842 ipsilateral surface spatial FBql:00005850 http://purl.org/obo/owl/FBql#FBql_00005850 lateral surface spatial FBql:00005844 http://purl.org/obo/owl/FBql#FBql_00005844 medial surface spatial FBql:00005847 http://purl.org/obo/owl/FBql#FBql_00005847 ventral surface spatial FBql:00005843 http://purl.org/obo/owl/FBql#FBql_00005843 anatomical section 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. A flat 2D plane intersecting an anatomical continuant, dividing it into two adjacent portions. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm anatomical cross-section cross-section plane section spatial FMA:242982 http://purl.org/obo/owl/FMA#FMA_242982 sagittal section Anatomical section that divides bilateral body into roughly mirror image left and right sections. Bilaterally symmetric organisms have a single sagittal plane. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm BSPO:mah http://purl.org/obo/owl/BSPO#BSPO_mah left/right plane sagittal plane median plane spatial FMA:11361 http://purl.org/obo/owl/FMA#FMA_11361 anterior margin spatial posterior margin spatial apical margin spatial basal margin spatial proximal margin spatial distal margin spatial dorsal margin spatial dorso-lateral margin dorsolateral margin spatial lateral margin spatial medial margin spatial ventral margin spatial ventro-lateral margin This is an example of a composition of two axis positions ventrolateral margin spatial antero-dorsal margin anterodorsal margin spatial postero-dorsal margin posterodorsal margin spatial antero-ventral margin anteroventral margin spatial postero-ventral margin posteroventral margin spatial medial axis 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. From centre of organism to one or other side. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm medio-lateral axis mediolateral axis ML axis spatial URL:http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG http://upload.wikimedia.org/wikipedia/commons/3/34/Anatomical_Directions_and_Axes.JPG anatomical entity 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 http://purl.org/obo/owl/CARO#CARO_MAH spatial anatomical_relation spatial FBql:00005860 http://purl.org/obo/owl/FBql#FBql_00005860 anterior_to rostral_to spatial FBcv:0000039 http://purl.org/obo/owl/FBcv#FBcv_0000039 FBql:00005863 http://purl.org/obo/owl/FBql#FBql_00005863 distal_to spatial FBcv:0000040 http://purl.org/obo/owl/FBcv#FBcv_0000040 FBql:00005867 http://purl.org/obo/owl/FBql#FBql_00005867 dorsal_to superior_to spatial FBcv:0000041 http://purl.org/obo/owl/FBcv#FBcv_0000041 FBql:00005865 http://purl.org/obo/owl/FBql#FBql_00005865 posterior_to caudal_to spatial FBcv:0000045 http://purl.org/obo/owl/FBcv#FBcv_0000045 FBql:00005864 http://purl.org/obo/owl/FBql#FBql_00005864 proximal_to The elbow is proximal to the hand, but distal to the shoulder. x proximal_to y iff x is closer to the point of attachment with the body than y. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial FBcv:0000047 http://purl.org/obo/owl/FBcv#FBcv_0000047 FBql:00005868 http://purl.org/obo/owl/FBql#FBql_00005868 surrounds spatial FBcv:0000048 http://purl.org/obo/owl/FBcv#FBcv_0000048 FBql:00005861 http://purl.org/obo/owl/FBql#FBql_00005861 ventral_to inferior_to spatial FBcv:0000049 http://purl.org/obo/owl/FBcv#FBcv_0000049 FBql:00005866 http://purl.org/obo/owl/FBql#FBql_00005866 vicinity_of spatial FBcv:0000050 http://purl.org/obo/owl/FBcv#FBcv_0000050 FBql:00005862 http://purl.org/obo/owl/FBql#FBql_00005862 approximately_perpendicular_to 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 http://purl.org/obo/owl/BSPO#BSPO_cjm spatial ipsilateral_to On the same side as. For example, the left arm is ipsilateral to the left leg. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial FBql:00005850 http://purl.org/obo/owl/FBql#FBql_00005850 contralateral_to On the opposite side from. For example, the left arm is contralateral to the right arm (and the right leg). BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial FBql:00005851 http://purl.org/obo/owl/FBql#FBql_00005851 deep_to Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial superficial_to Near the outer surface of the organism. Thus, skin is superficial to the muscle layer. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial surrounded_by spatial left_of 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 http://purl.org/obo/owl/BSPO#BSPO_cjm spatial right_of 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 http://purl.org/obo/owl/BSPO#BSPO_cjm spatial in_left_side_of X 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 http://purl.org/obo/owl/BSPO#BSPO_PATO_mtg_2009 spatial in_right_side_of X 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 http://purl.org/obo/owl/BSPO#BSPO_PATO_mtg_2009 spatial in_posterior_side_of 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 http://purl.org/obo/owl/BSPO#BSPO_PATO_mtg_2009 spatial in_anterior_side_of X anterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the posterior portion. BSPO:PATO_mtg_2009 http://purl.org/obo/owl/BSPO#BSPO_PATO_mtg_2009 spatial finishes_axis 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 spatial follows_axis spatial has_end_point Axes can be defined in a given species by subtyping the relevant axis type and stating a end and end point A relation between an axis and a part of an organism, in which the part defines the initial point of the axis. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial has_start_point Axes can be defined in a given species by subtyping the relevant axis type and stating a start and end point. A relation between an axis and a part of an organism, in which the part defines the initial point of the axis. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial opposite_to Direcly opposite to. i.e. on the opposite side through the axis. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial orthogonal_to crossing at right angles BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial overlaps x overlaps y iff they have some part in common. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial passes_through Intersects at two points. BSPO:cjm http://purl.org/obo/owl/BSPO#BSPO_cjm spatial starts_axis 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 spatial surface_of placeholder. used for relation between anatomical surface and an anatomical side. spatial