Class: Organoid
A 3D cell culture system that self-organizes to recapitulate key structural and functional aspects of an organ or tissue
URI: [namo:Organoid](https://w3id.org/monarch-initiative/namo/Organoid)
[GrossAnatomicalStructure](GrossAnatomicalStructure.md) | The organ or tissue being modeled | direct | | [differentiation_method](differentiation_method.md) | 0..1
[String](String.md) | Method used to differentiate cells into organoid (e | direct | | [culture_system](culture_system.md) | 0..1
[String](String.md) | Culture system used (e | direct | | [three_d_architecture](three_d_architecture.md) | 0..1
[ThreeDArchitectureEnum](ThreeDArchitectureEnum.md) | Type of 3D architecture (spheroid, organoid, scaffold-based, etc | [ThreeDCellCulture](ThreeDCellCulture.md) | | [matrix_composition](matrix_composition.md) | 0..1
[String](String.md) | Composition of extracellular matrix or scaffold material | [ThreeDCellCulture](ThreeDCellCulture.md) | | [size_range](size_range.md) | 0..1
[String](String.md) | Typical size range of 3D structures | [ThreeDCellCulture](ThreeDCellCulture.md) | | [cell_types](cell_types.md) | *
[Cell](Cell.md) | Cell types present in the cellular system | [CellularSystem](CellularSystem.md) | | [cell_source](cell_source.md) | 0..1
[String](String.md) | Source of cells (e | [CellularSystem](CellularSystem.md) | | [culture_conditions](culture_conditions.md) | 0..1
[String](String.md) | Standard culture conditions and media used | [CellularSystem](CellularSystem.md) | | [biological_organization_level](biological_organization_level.md) | 0..1
[BiologicalOrganizationLevelEnum](BiologicalOrganizationLevelEnum.md) | The level of biological organization represented by the model | [NAMModel](NAMModel.md) | | [spatial_context](spatial_context.md) | 0..1
[String](String.md) | Description of spatial organization and context captured by the model | [NAMModel](NAMModel.md) | | [complexity_level](complexity_level.md) | 0..1
[ComplexityLevelEnum](ComplexityLevelEnum.md) | Level of biological complexity represented (subcellular, cellular, tissue, or... | [NAMModel](NAMModel.md) | | [references](references.md) | *
[Reference](Reference.md) | Literature references that describe, validate, or support this model | [NAMModel](NAMModel.md) | | [models](models.md) | *
[ModelsRelationship](ModelsRelationship.md) | | [ModelSystem](ModelSystem.md) | | [id](id.md) | 1
[Uriorcurie](Uriorcurie.md) | A unique identifier for a thing | [NamedThing](NamedThing.md) | | [name](name.md) | 0..1
[String](String.md) | A human-readable name for a thing | [NamedThing](NamedThing.md) | | [description](description.md) | 0..1
[String](String.md) | A human-readable description for a thing | [NamedThing](NamedThing.md) | | [type](type.md) | 0..1
[String](String.md) | | [NamedThing](NamedThing.md) | ## See Also * [https://doi.org/10.3390/jdb10010007](https://doi.org/10.3390/jdb10010007) ## Identifier and Mapping Information ### Schema Source * from schema: https://w3id.org/monarch-initiative/namo ## Mappings | Mapping Type | Mapped Value | | --- | --- | | self | namo:Organoid | | native | namo:Organoid | | exact | MISpheroID:organoid, MISpheroID:spheroid | ## LinkML Source ### Direct
### Induced
classDiagram
class Organoid
click Organoid href "../Organoid/"
ThreeDCellCulture <|-- Organoid
click ThreeDCellCulture href "../ThreeDCellCulture/"
Organoid : biological_organization_level
Organoid --> "0..1" BiologicalOrganizationLevelEnum : biological_organization_level
click BiologicalOrganizationLevelEnum href "../BiologicalOrganizationLevelEnum/"
Organoid : cell_source
Organoid : cell_types
Organoid --> "*" Cell : cell_types
click Cell href "../Cell/"
Organoid : complexity_level
Organoid --> "0..1" ComplexityLevelEnum : complexity_level
click ComplexityLevelEnum href "../ComplexityLevelEnum/"
Organoid : culture_conditions
Organoid : culture_system
Organoid : description
Organoid : differentiation_method
Organoid : id
Organoid : matrix_composition
Organoid : models
Organoid --> "*" ModelsRelationship : models
click ModelsRelationship href "../ModelsRelationship/"
Organoid : name
Organoid : organ_modeled
Organoid --> "0..1" GrossAnatomicalStructure : organ_modeled
click GrossAnatomicalStructure href "../GrossAnatomicalStructure/"
Organoid : references
Organoid --> "*" Reference : references
click Reference href "../Reference/"
Organoid : size_range
Organoid : spatial_context
Organoid : three_d_architecture
Organoid --> "0..1" ThreeDArchitectureEnum : three_d_architecture
click ThreeDArchitectureEnum href "../ThreeDArchitectureEnum/"
Organoid : type
## Inheritance
* [NamedThing](NamedThing.md)
* [ModelSystem](ModelSystem.md)
* [NAMModel](NAMModel.md)
* [CellularSystem](CellularSystem.md)
* [ThreeDCellCulture](ThreeDCellCulture.md)
* **Organoid**
## Slots
| Name | Cardinality and Range | Description | Inheritance |
| --- | --- | --- | --- |
| [organ_modeled](organ_modeled.md) | 0..1 [GrossAnatomicalStructure](GrossAnatomicalStructure.md) | The organ or tissue being modeled | direct | | [differentiation_method](differentiation_method.md) | 0..1
[String](String.md) | Method used to differentiate cells into organoid (e | direct | | [culture_system](culture_system.md) | 0..1
[String](String.md) | Culture system used (e | direct | | [three_d_architecture](three_d_architecture.md) | 0..1
[ThreeDArchitectureEnum](ThreeDArchitectureEnum.md) | Type of 3D architecture (spheroid, organoid, scaffold-based, etc | [ThreeDCellCulture](ThreeDCellCulture.md) | | [matrix_composition](matrix_composition.md) | 0..1
[String](String.md) | Composition of extracellular matrix or scaffold material | [ThreeDCellCulture](ThreeDCellCulture.md) | | [size_range](size_range.md) | 0..1
[String](String.md) | Typical size range of 3D structures | [ThreeDCellCulture](ThreeDCellCulture.md) | | [cell_types](cell_types.md) | *
[Cell](Cell.md) | Cell types present in the cellular system | [CellularSystem](CellularSystem.md) | | [cell_source](cell_source.md) | 0..1
[String](String.md) | Source of cells (e | [CellularSystem](CellularSystem.md) | | [culture_conditions](culture_conditions.md) | 0..1
[String](String.md) | Standard culture conditions and media used | [CellularSystem](CellularSystem.md) | | [biological_organization_level](biological_organization_level.md) | 0..1
[BiologicalOrganizationLevelEnum](BiologicalOrganizationLevelEnum.md) | The level of biological organization represented by the model | [NAMModel](NAMModel.md) | | [spatial_context](spatial_context.md) | 0..1
[String](String.md) | Description of spatial organization and context captured by the model | [NAMModel](NAMModel.md) | | [complexity_level](complexity_level.md) | 0..1
[ComplexityLevelEnum](ComplexityLevelEnum.md) | Level of biological complexity represented (subcellular, cellular, tissue, or... | [NAMModel](NAMModel.md) | | [references](references.md) | *
[Reference](Reference.md) | Literature references that describe, validate, or support this model | [NAMModel](NAMModel.md) | | [models](models.md) | *
[ModelsRelationship](ModelsRelationship.md) | | [ModelSystem](ModelSystem.md) | | [id](id.md) | 1
[Uriorcurie](Uriorcurie.md) | A unique identifier for a thing | [NamedThing](NamedThing.md) | | [name](name.md) | 0..1
[String](String.md) | A human-readable name for a thing | [NamedThing](NamedThing.md) | | [description](description.md) | 0..1
[String](String.md) | A human-readable description for a thing | [NamedThing](NamedThing.md) | | [type](type.md) | 0..1
[String](String.md) | | [NamedThing](NamedThing.md) | ## See Also * [https://doi.org/10.3390/jdb10010007](https://doi.org/10.3390/jdb10010007) ## Identifier and Mapping Information ### Schema Source * from schema: https://w3id.org/monarch-initiative/namo ## Mappings | Mapping Type | Mapped Value | | --- | --- | | self | namo:Organoid | | native | namo:Organoid | | exact | MISpheroID:organoid, MISpheroID:spheroid | ## LinkML Source ### Direct
name: Organoid
description: A 3D cell culture system that self-organizes to recapitulate key structural
and functional aspects of an organ or tissue
from_schema: https://w3id.org/monarch-initiative/namo
see_also:
- https://doi.org/10.3390/jdb10010007
exact_mappings:
- MISpheroID:organoid
- MISpheroID:spheroid
is_a: ThreeDCellCulture
attributes:
organ_modeled:
name: organ_modeled
description: The organ or tissue being modeled
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
domain_of:
- Organoid
- OrganOnChip
range: GrossAnatomicalStructure
bindings:
- range: OrganEnum
obligation_level: REQUIRED
binds_value_of: id
inlined: true
differentiation_method:
name: differentiation_method
description: Method used to differentiate cells into organoid (e.g., directed
differentiation protocol)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
domain_of:
- Organoid
culture_system:
name: culture_system
description: Culture system used (e.g., Matrigel dome, suspension culture, air-liquid
interface)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
domain_of:
- Organoid
name: Organoid
description: A 3D cell culture system that self-organizes to recapitulate key structural
and functional aspects of an organ or tissue
from_schema: https://w3id.org/monarch-initiative/namo
see_also:
- https://doi.org/10.3390/jdb10010007
exact_mappings:
- MISpheroID:organoid
- MISpheroID:spheroid
is_a: ThreeDCellCulture
attributes:
organ_modeled:
name: organ_modeled
description: The organ or tissue being modeled
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- Organoid
- OrganOnChip
range: GrossAnatomicalStructure
bindings:
- range: OrganEnum
obligation_level: REQUIRED
binds_value_of: id
inlined: true
differentiation_method:
name: differentiation_method
description: Method used to differentiate cells into organoid (e.g., directed
differentiation protocol)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- Organoid
range: string
culture_system:
name: culture_system
description: Culture system used (e.g., Matrigel dome, suspension culture, air-liquid
interface)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- Organoid
range: string
three_d_architecture:
name: three_d_architecture
description: Type of 3D architecture (spheroid, organoid, scaffold-based, etc.)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- ThreeDCellCulture
range: ThreeDArchitectureEnum
matrix_composition:
name: matrix_composition
description: Composition of extracellular matrix or scaffold material
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- ThreeDCellCulture
range: string
size_range:
name: size_range
description: Typical size range of 3D structures
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- ThreeDCellCulture
range: string
cell_types:
name: cell_types
description: Cell types present in the cellular system
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- CellularSystem
- OrganOnChip
range: Cell
bindings:
- range: CellTypeEnum
obligation_level: REQUIRED
binds_value_of: id
multivalued: true
inlined: true
inlined_as_list: true
cell_source:
name: cell_source
description: Source of cells (e.g., primary, iPSC-derived, immortalized cell lines)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- CellularSystem
- OrganOnChip
range: string
culture_conditions:
name: culture_conditions
description: Standard culture conditions and media used
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- CellularSystem
range: string
biological_organization_level:
name: biological_organization_level
description: The level of biological organization represented by the model
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- NAMModel
range: BiologicalOrganizationLevelEnum
spatial_context:
name: spatial_context
description: Description of spatial organization and context captured by the model
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- NAMModel
range: string
complexity_level:
name: complexity_level
description: Level of biological complexity represented (subcellular, cellular,
tissue, organ, system)
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- NAMModel
range: ComplexityLevelEnum
references:
name: references
description: Literature references that describe, validate, or support this model
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- NAMModel
range: Reference
multivalued: true
inlined: true
inlined_as_list: true
models:
name: models
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
owner: Organoid
domain_of:
- ModelSystem
range: ModelsRelationship
multivalued: true
id:
name: id
description: A unique identifier for a thing
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
slot_uri: schema:identifier
identifier: true
owner: Organoid
domain_of:
- NamedThing
- Reference
- BiolinkEntity
range: uriorcurie
required: true
name:
name: name
description: A human-readable name for a thing
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
slot_uri: schema:name
owner: Organoid
domain_of:
- NamedThing
- BiolinkEntity
range: string
description:
name: description
description: A human-readable description for a thing
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
slot_uri: schema:description
owner: Organoid
domain_of:
- NamedThing
- BiolinkEntity
range: string
type:
name: type
from_schema: https://w3id.org/monarch-initiative/namo
rank: 1000
designates_type: true
owner: Organoid
domain_of:
- NamedThing
range: string