SAO-CORE_properties: contains properties from SAO-CORE
type: Ontology

has Part
type: ObjectProperty
inverse of: is Part Of
comment: Replaced with RO's has_part.
sub property of: obsolete Object Property
sao ID: sao5598458770

is Part Of
type: ObjectProperty
sub property of: obsolete Object Property
sao ID: sao9906015852
inverse of: has Part
comment: Replaced with RO's part_of.

obsolete Object Property
type: ObjectProperty
type: DeprecatedProperty
range: sao-943768255
sao ID: sao663269984
domain: sao-943768255

continuous With Centripetal
type: ObjectProperty
sao ID: sao158083006
sub property of: obsolete Object Property

contains Site
type: ObjectProperty
sub property of: obsolete Object Property
sao ID: sao554204175
inverse of: site Contained In

site Contained In
type: ObjectProperty
domain: sao-943768255
comment: Replaced this property with RO's contained_in. Classes using this property were Pre-synaptic Site, Pre-synaptic Active Zone, and Post-synaptic Site.
inverse of: contains Site
sub property of: obsolete Object Property
sao ID: sao6748852360

has Property
type: ObjectProperty
sub property of: obsolete Object Property
comment: Replaced with inheres_In.
comment: refers to a set of property classes that reflect unique aspects of a given structure, e.g., orientation, stability
sao ID: sao2103390115

is Morphological Type Of
type: ObjectProperty
inverse of: has Morphological Type
comment: Replaced with inheres_In.
sao ID: sao3610809721
sub property of: has Property

has Morphological Type
type: ObjectProperty
sub property of: has Property
sao ID: sao3931558608
domain: sao-943768255
inverse of: is Morphological Type Of
comment: Replaced with inheres_In.

has Boundary
type: ObjectProperty
domain: Class
  union of: Site
  union of: Object
inverse of: boundary Of
comment: Refers to a structure that defines the boundary of a given structure
sub property of: relationship
range: Class
  union of: Object
  union of: ObjectBoundary
sao ID: sao1844377738

boundary Of
type: FunctionalProperty
comment: Indicates that the structure forms the boundary for another structure, e.g., membrane of endoplasmic reticulum is boundary of lumen of endoplasmic reticulum
inverse of: has Boundary
sao ID: sao923422536
type: ObjectProperty
range: Class
  union of: Site
  union of: Object
sub property of: relationship
domain: Class
  union of: Object
  union of: ObjectBoundary

associated Cellular Element
type: ObjectProperty
comment: Cellular element derived from another cell associated with a compartment, e.g., myelin
comment: Replaced with RO's part_of. Classes using this property were Neuritic Plaque and Senile Plaque.
sao ID: sao180517057
sub property of: associated With

associated With
type: ObjectProperty
sub property of: is Part Of
sao ID: sao2047323768
comment: Indicates that there is a spatial relationship other than containment or parthood between cellular regional parts or components (e.g. microtuble associates with mitochondria)
comment: Replaced with RO's is_part_of.

intercellular Junction Compartment
type: ObjectProperty
sub property of: obsolete Object Property
sao ID: sao733319732
inverse of: is Intercellular Junction Compartment Of
comment: participates in one or more types of intercellular junctions

is Intercellular Junction Compartment Of
type: ObjectProperty
domain: sao-943768255
sub property of: obsolete Object Property
sao ID: sao45720944
inverse of: intercellular Junction Compartment

has Vesicle Component
type: ObjectProperty
inverse of: is Vesicle Component Of
sao ID: sao3762365186
sub property of: obsolete Object Property

is Vesicle Component Of
type: ObjectProperty
sao ID: sao7291254923
inverse of: has Vesicle Component
domain: sao-943768255
sub property of: obsolete Object Property

has Neurotransmitter
type: ObjectProperty
domain: sao-943768255
comment: Replaced with RO's has_proper_part.
comment: Neurotransmitter associated with neuronal class
sub property of: has Molecular Constituent
sao ID: sao1490541696
inverse of: is Neurotransmitter Of

has Molecular Constituent
type: ObjectProperty
comment: Replaced with RO's has_proper_part.
sub property of: has Component
domain: sao-943768255
inverse of: is Molecular Constituent Of
sao ID: sao152994059

is Neurotransmitter Of
type: InverseFunctionalProperty
sao ID: sao924725934
comment: Replaced with RO's proper_part_of.
sub property of: is Molecular Constituent Of
inverse of: has Neurotransmitter
type: ObjectProperty

has Component
type: TransitiveProperty
domain: sao-943768255
sao ID: sao1623809261
comment: Replaced with RO's has_proper_part.
comment: Cellular components found in typical cells.
sub property of: obsolete Object Property
type: ObjectProperty
inverse of: is Component Of

is Molecular Constituent Of
type: ObjectProperty
inverse of: has Molecular Constituent
comment: Replaced with RO's proper_part_of.
sao ID: sao1939689633
sub property of: is Component Of

located in
type: ObjectProperty
inverse of: is Location Of
sao ID: sao4245285112
sub property of: obsolete Object Property
comment: Replaced with RO's located_in. Classes using this property are Chemical Synapse, Junction Complex, and Vesicle.

is Location Of
type: ObjectProperty
comment: This was replaced by RO's contained_in. Classes that were using this property include Contact Site, Internode, Juxtaparanode, Node of Ranvier, Paranode, Post-synaptic Site, and Pre-synaptic Active Zone.
sao ID: sao9371595441
sub property of: obsolete Object Property
domain: sao-943768255
inverse of: located in

has Adjacent Cellular Element
type: ObjectProperty
sub property of: obsolete Object Property
sao ID: sao8979892663

inheres In
type: ObjectProperty
sao ID: sao5320776245
creator: Lisa Fong
created date: 07/02/2008
sub property of: relationship
temp definition: Refers to a set of properties that reflect unique qualities of a given structure, e.g., orientation, stability.

has Aggregate Part
type: ObjectProperty
sao ID: sao8839644583
inverse of: is Aggregate Part of
sub property of: has Part
comment: Replaced with RO's has_part. Classes that were using this property were Amyloid Aggregate, Chemical Synapse, Ribbon Synapse, and Supra Cellular Structure.

is Aggregate Part of
type: ObjectProperty
domain: sao-943768255
comment: Replaced with RO's part_of.
inverse of: has Aggregate Part
sao ID: sao2422696582
sub property of: is Part Of

location Component
type: ObjectProperty
sub property of: anatomical Location
sao ID: sao333215121
comment: Refers to the cellular component with which a feature is associated, e.g., ion receptor is associated with the plasma membrane
comment: Replaced with RO's located_in. The one class using this property was Intracellular Calcium Channel.

anatomical Location
type: ObjectProperty
sub property of: obsolete Object Property
comment: Replaced with RO's located_in. Before the switch, no classes were using this property.
sao ID: sao7122682114

is Population Of
type: ObjectProperty
comment: Replaced with RO's part_of.
comment: This is intended to describe what kind of object the members of a population are.
sao ID: sao7905250655
sub property of: obsolete Object Property

is Component Of
type: ObjectProperty
sao ID: sao138767806
comment: Replaced with RO's proper_part_of
sub property of: obsolete Object Property
inverse of: has Component

continuous With Centrifugal
type: ObjectProperty
sub property of: obsolete Object Property
sao ID: sao1454173298

has Surrounding Cellular Element
type: ObjectProperty
sub property of: associated Cellular Element
comment: Replaced with RO's part_of. The one class using this property was Nueritic Plaque.
sao ID: sao4718979881

associated Cell Component
type: ObjectProperty
comment: Used to describe a physical relationship between two or more cellular components
comment: Replaced with RO's part_of. Classes using this property were Contact Site and Nucleolus-associated Heterochromatin.
sub property of: associated With
sao ID: sao1356746816

morphometrics
type: ObjectProperty
sub property of: has Property
comment: Replaced with inheres_In.
comment: Measurement associated with compartment
sao ID: sao872346836

is Regional Part Of
type: ObjectProperty
sub property of: obsolete Object Property
sao ID: sao1239937685
comment: Replaced with RO's integral_part_of. The only class using this property was Dendritic Spine.
inverse of: has Regional Part
domain: sao-943768255

has Regional Part
type: TransitiveProperty
type: ObjectProperty
sub property of: obsolete Object Property
comment: Replaced with RO's integral_part. Many classes used this property, including Axon, Classical Lewy Body, Dendrite, Dendritic Tree, Epithelial Cell, Glial Cell, Golgi Apparatus)
sao ID: sao1434436507
inverse of: is Regional Part Of

anatomical Location Specific
type: ObjectProperty
sub property of: anatomical Location
sao ID: sao548011359
comment: Refers to the specific location of an instance of a cell
comment: Replaced with RO's located_in. Before the switch, no classes were using this property.

maximum
type: DatatypeProperty
sao ID: sao395752640
range: float
comment: maximum value in a range
sub property of: obsolete Datatype Property

obsolete Datatype Property
type: DatatypeProperty
domain: sao-943768255
sao ID: sao5853312183
comment: All datatype properties were made obsolete on 7/23/08. However, we may end up using some of these later.

point Of Measurement
type: DatatypeProperty
sub property of: obsolete Datatype Property
sao ID: sao1669593695
comment: Indicates the point at which a described measurement was taken
range: DataRange
  one of: proximal
  one of: distal

minimum
type: DatatypeProperty
range: float
comment: Minimum value in a range
sao ID: sao643761283
sub property of: obsolete Datatype Property

presence
type: DatatypeProperty
curation status: graph position temporary
definition: Used to denote the presence or absence of a feature. "Found" indicates that the feature described was observed in this instance. "Found" is always assumed to be the default. "Not found" indicates that a feature was looked for and specifically not found, e.g. microtubules were not found in dendritic spines. This value should not be used if the feature was merely not described.
comment: This property should be updated when we switch to OBR relations to the "lacks" relationship
sub property of: obsolete Datatype Property
sao ID: sao2372462654
range: DataRange
  one of: not found

is Continuant
type: DatatypeProperty
sub property of: obsolete Datatype Property
comment: A continuant is an entity that endures through time. If true, then entity is a continuant; if false, then entity is an occurrent. An occurrent is defined as a process, event or happening, e.g., a dividing cell.
range: DataRange
  one of: false
  one of: true
sao ID: sao1798215493

synapse Type
type: DatatypeProperty
sao ID: sao99760531
sub property of: obsolete Datatype Property
comment: Classification of synaptic type according to Gray, except using the symmetrical (Gray's Type 2) and asymmetrical (Gray's Type 1) designations
range: DataRange
  one of: asymmetrical
  one of: symmetrical

has Inherent 3D Shape
type: DatatypeProperty
range: DataRange
  one of: false
  one of: true
sao ID: sao1254683799
sub property of: obsolete Datatype Property

observation Conditions
type: DatatypeProperty
range: string
sao ID: sao1429489883
comment: Indicates under what conditions the observation was made
sub property of: obsolete Datatype Property

anatomical Location General
type: DatatypeProperty
range: string
sao ID: sao1065676773
sub property of: obsolete Datatype Property
comment: General description of the anatomical location assigned to the cell class, regardless of whether parts of the cell are located elsewhere. For neurons, this would be the location of the cell soma
comment: This property is temporarily defined as a datatype property. We anticipate that the locations of cells and cell parts will be drawn from a neuroanatomical brain region ontology in a future version.
curation status: graph position temporary

has Mass
type: DatatypeProperty
range: DataRange
  one of: false
  one of: true
sao ID: sao1077517916
sub property of: obsolete Datatype Property

PSD morphology
type: DatatypeProperty
sao ID: sao1056822429
range: DataRange
  one of: perforated
  one of: macular
  one of: asymmetric
  one of: symmetric
preferred label: psd Morphology
comment: Describes general morphology of the post synaptic density (PSD), where it is classified as macular if the thickening is continuous, or perforated when the PSD is interrupted by electron-lucent regions (Harris KM et al., 1992).
sub property of: obsolete Datatype Property

site Adjacent To
type: SymmetricProperty
sao ID: sao7022761014
sub property of: obsolete Object Property
type: ObjectProperty
comment: Replaced this property with RO's adjacent_to. Classes using this property were node related sites (Internode, Paranode, Juxtaparanode, Node of Ranvier).

continuous With
type: SymmetricProperty
definition: Physical continuity between structures
type: ObjectProperty
sao ID: sao1896217670
comment: Note that only a section (not its entirety) of the structure is continuous with another structure. It is a physical propety that relates spatial objects. We think this property should be a combination of integral part/is_integral_part_of and has_boundary.
curation status: graph position temporary
comment: This idea was adopted from FMA but possibly needs reconsideration.
sub property of: relationship

Age of Animal
type: FunctionalProperty
sub property of: obsolete Datatype Property
sao ID: sao2134236783
comment: Indicates the age of the animal in which the observation was made
range: string
preferred label: age Of Animal
type: DatatypeProperty

species
type: FunctionalProperty
range: string
type: DatatypeProperty
sao ID: sao1185641609
sub property of: obsolete Datatype Property
comment: Indicates the species of organism from which an observation derives

process Number
type: FunctionalProperty
sub property of: obsolete Datatype Property
comment: Describes the general morphology of a class of neurons with respect to the number of processes extending from the cell soma
sao ID: sao841626191
type: DatatypeProperty
range: DataRange
  one of: bipolar
  one of: unipolar
  one of: multipolar

branch Order
type: FunctionalProperty
type: DatatypeProperty
range: DataRange
  one of: 3
  one of: >3
  one of: 2
  one of: >2
comment: A property of branching structures such as axons and dendrites
sub property of: obsolete Datatype Property
sao ID: sao996727841

number Primary Dendrites Min
type: FunctionalProperty
sao ID: sao950829914
sub property of: obsolete Datatype Property
label: Number of Primary Dendrites Min
range: int
comment: Refers to the minimum number of primary dendrites arising from the cell soma
type: DatatypeProperty

density
type: FunctionalProperty
range: float
sub property of: obsolete Datatype Property
type: DatatypeProperty
sao ID: sao382106499

atlas Reference Point
type: FunctionalProperty
sao ID: sao1945565347
range: string
type: DatatypeProperty
comment: Reference point of the coordinate system used, e.g., bregma
sub property of: obsolete Datatype Property
label: Atlas reference point

atlas Coordinate M-L
type: FunctionalProperty
sao ID: sao1804901442
label: Atlas Coordinate M-L
comment: Coordinate along the medial-lateral axis
range: string
sub property of: obsolete Datatype Property
type: DatatypeProperty

Number of Axons
type: FunctionalProperty
range: int
sub property of: obsolete Datatype Property
comment: Refers to the number of axons arising from the cell soma or primary dendrite. Usually is "1", but may be "0" for some neuron types. In rare cases in mammalian neurons, may be more than 1.
preferred label: number Of Axons
type: DatatypeProperty
sao ID: sao1384659949

orientation Reference To
type: FunctionalProperty
sao ID: sao2110623092
range: string
comment: Element with reference to which orientation is defined
sub property of: obsolete Datatype Property
type: DatatypeProperty

value Type
type: FunctionalProperty
sao ID: sao375065056
comment: Describes whether the reported values are averages, estimates, ranges, or absolute values
sub property of: obsolete Datatype Property
type: DatatypeProperty
range: DataRange
  one of: range
  one of: less than or equal to
  one of: estimate
  one of: greater than or equal to
  one of: greater than
  one of: average
  one of: less than
  one of: direct
  one of: absolute

ccdb ID
type: FunctionalProperty
sub property of: obsolete Datatype Property
sao ID: sao796296921
range: string
definition: Unique identifier of an instance found in the CCDB.
type: DatatypeProperty

shape
type: FunctionalProperty
sao ID: sao166035570
type: DatatypeProperty
range: DataRange
  one of: convex
  one of: concave
  one of: spherical
  one of: elliptical
  one of: spindle-shaped
  one of: round
  one of: flat
  one of: cylindrical
comment: Used to describe generic shape of a component or compartment
sub property of: obsolete Datatype Property

Atlas Coordinate D-V
type: FunctionalProperty
range: string
type: DatatypeProperty
sub property of: obsolete Datatype Property
sao ID: sao833783433
comment: Coordinate along the dorsal ventral axis
preferred label: atlas Coordinate D-V

unit
type: FunctionalProperty
sub property of: obsolete Datatype Property
range: DataRange
  one of: angstroms
  one of: microns
  one of: spines per micron
  one of: cubic microns
  one of: microns squared
comment: unit of measurement
type: DatatypeProperty
sao ID: sao40919963

number Primary Dendrites Max
type: FunctionalProperty
sub property of: obsolete Datatype Property
comment: Refers to the maximum number of primary dendrites generally seen in a particulary neuronal class
type: DatatypeProperty
range: int
sao ID: sao1936650489

number Of Branches
type: FunctionalProperty
sub property of: obsolete Datatype Property
range: string
sao ID: sao1746944408
type: DatatypeProperty

molecular weight
type: FunctionalProperty
sub property of: obsolete Datatype Property
sao ID: sao1220772118
type: DatatypeProperty
range: string
preferred label: molecular Weight

standard Error
type: FunctionalProperty
range: float
sub property of: obsolete Datatype Property
type: DatatypeProperty
sao ID: sao1620782974
comment: Standard error (+/-)

maximum Branch Order
type: FunctionalProperty
range: int
type: DatatypeProperty
comment: Refers to the maximum branch order of the dendritic tree
sub property of: obsolete Datatype Property
sao ID: sao925977276

total Dendritic Length
type: FunctionalProperty
sub property of: obsolete Datatype Property
sao ID: sao528500906
range: float
comment: Cumulative length of all dendrites in the dendritic tree
type: DatatypeProperty

is Spiny
type: FunctionalProperty
range: boolean
type: DatatypeProperty
sao ID: sao1863785805
comment: Denotes whether a neuron or dendrite is characterized by at least one spine.
sub property of: obsolete Datatype Property

circuit Type
type: FunctionalProperty
sao ID: sao1967171150
range: DataRange
  one of: projection neuron
  one of: local circuit neuron
sub property of: obsolete Datatype Property
type: DatatypeProperty

anatomical Location Atlas
type: FunctionalProperty
comment: Replaced with RO's located_in. Before the switch, no classes were using this property.
comment: Location of a cell in a specific coordinate system
type: ObjectProperty
label: Anatomical location: atlas
sub property of: anatomical Location
sao ID: sao1597912566

functional Type
type: FunctionalProperty
comment: functional categorization of cell, e.g., motor, sensory, secretory, myelinating
sao ID: sao1608074544
type: DatatypeProperty
range: DataRange
  one of: inhibitory
  one of: modulatory
  one of: excitatory
sub property of: obsolete Datatype Property

parent Cell Identity
type: FunctionalProperty
type: DatatypeProperty
range: DataRange
  one of: Asserted
  one of: concrete
  one of: abstract
sub property of: obsolete Datatype Property
comment: Used to describe the method by which the parent cell to a subcellular part is identified. "Identified cell" means that some sort of interacellular label was used to identify the parent cell with some degree of certainty; "asserted" refers to the use of morphological and anatomical criteria to assign identity to a parent.
sao ID: sao1981606713

atlas Coordinate A-P
type: FunctionalProperty
range: string
sao ID: sao2048509857
sub property of: obsolete Datatype Property
comment: Coordiante along the anteior-posterior axis
type: DatatypeProperty
label: Atlas Coordinate A-P

attached To
type: FunctionalProperty
sao ID: sao1896476612
pending action note: Need to determine whether this property is useful in conjunction with intercellular junctions, i.e., in order for two things to be attached, there must be a junction of some sort
sub property of: obsolete Object Property
comment: Indicates an intimate contact between two anatomical entities, each with their own real boundaries
type: ObjectProperty

isoform
type: FunctionalProperty
type: DatatypeProperty
sao ID: sao1267375031
range: string
sub property of: obsolete Datatype Property

Atlas Reference
type: FunctionalProperty
sub property of: obsolete Datatype Property
comment: Name and edition of atlas used to derive coordinates
range: string
type: DatatypeProperty
preferred label: atlas Reference
sao ID: sao244654816

population Object
type: FunctionalProperty
sao ID: sao1428515021
type: DatatypeProperty
range: DataRange
  one of: Yes
  one of: No
comment: Used to describe whether properties are derived from a single, identified object or represent a summary derived from multiple instances of the object. For example, if a source described the properties of a single filled dendrites, this would not be a population object. If a source described the general attributes of all dendrites from a single neuron, then this would be a population object because the properties represent a summary of all dendrites lumped together. The number field can be used to specify the number of objects on which the descriptions is based.
sub property of: obsolete Datatype Property

polarity Reference To
type: FunctionalProperty
sao ID: sao431495567
type: DatatypeProperty
comment: Reference to which polarity is defined
sub property of: obsolete Datatype Property
range: string

sex Of Animal
type: FunctionalProperty
sao ID: sao392224970
sub property of: obsolete Datatype Property
type: DatatypeProperty
range: DataRange
  one of: Female
  one of: Male
  one of: Unspecified
comment: Indicates the sex of the animal in which the observation was made.

value
type: FunctionalProperty
type: DatatypeProperty
sao ID: sao655061336
range: float
comment: measurement value
sub property of: obsolete Datatype Property

number
type: FunctionalProperty
type: DatatypeProperty
range: int
sub property of: obsolete Datatype Property
sao ID: sao267012610

location CNS PNS
type: FunctionalProperty
sub property of: obsolete Datatype Property
type: DatatypeProperty
comment: Differentiates between cells and processes that are located in the central nervous system (CNS) vs peripheral nervous system (PNS). Does not refer to embyrological origin.
range: DataRange
  one of: CNS
  one of: PNS
sao ID: sao1130665397