Class: SampleCell

Unifying class to describe the full sample with growth conditions

URI: https://w3id.org/oscem-schemas/latest/cellular_tomo/SampleCell

erDiagram Freezing { string atmosphere boolean blotting string cryogen_sample_env string details FreezingMethodEnum method } GrowthCondition { string atmosphere_growth string cell_cycle string growth_location string media string treatment } QuantitySI { string unitSI float valueSI string unit float value } SampleCell { } SpecimenEnv { date collection_date string handling string location stringList organism string source_env string tissue } Thinning { string instrument_thin string ion_source boolean lift_out string method_thin } TomogramFeatures { string cellular_features string details_tomo string main_target stringList organelles } Freezing ||--|o QuantitySI : "humidity_env, temperature_env" GrowthCondition ||--|o QuantitySI : "temperature_growth" SampleCell ||--|o Freezing : "freezing" SampleCell ||--|o GrowthCondition : "growth_condition" SampleCell ||--|o Thinning : "thinning" SampleCell ||--|o TomogramFeatures : "tomogram_features" SampleCell ||--|| SpecimenEnv : "specimen_env" Thinning ||--|o QuantitySI : "target_thickness"

Inheritance

SampleEnv
- SampleCell

Slots

Name	Cardinality and Range	Description	Inheritance
growth_condition	0..1 GrowthCondition	How the specimen was grown	direct
specimen_env	1 SpecimenEnv		SampleEnv
freezing	0..1 Freezing		SampleEnv
thinning	0..1 Thinning		SampleEnv
tomogram_features	0..1 TomogramFeatures		SampleEnv

Usages

used by	used in	type	used
EMDatasetCell	sample	range	SampleCell

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/oscem-schemas/latest/cellular_tomo

Mappings

Mapping Type	Mapped Value
self	https://w3id.org/oscem-schemas/latest/cellular_tomo/SampleCell
native	https://w3id.org/oscem-schemas/latest/cellular_tomo/SampleCell

LinkML Source

Direct

name: SampleCell
description: Unifying class to describe the full sample with growth conditions
from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
is_a: SampleEnv
slots:
- growth_condition

Induced

name: SampleCell
description: Unifying class to describe the full sample with growth conditions
from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
is_a: SampleEnv
attributes:
  growth_condition:
    name: growth_condition
    description: How the specimen was grown
    from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
    rank: 1000
    owner: SampleCell
    domain_of:
    - SampleCell
    range: GrowthCondition
  specimen_env:
    name: specimen_env
    from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
    rank: 1000
    owner: SampleCell
    domain_of:
    - SampleEnv
    range: SpecimenEnv
    required: true
  freezing:
    name: freezing
    from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
    rank: 1000
    owner: SampleCell
    domain_of:
    - SampleEnv
    range: Freezing
  thinning:
    name: thinning
    from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
    rank: 1000
    owner: SampleCell
    domain_of:
    - SampleEnv
    range: Thinning
  tomogram_features:
    name: tomogram_features
    from_schema: https://w3id.org/oscem-schemas/latest/cellular_tomo
    rank: 1000
    owner: SampleCell
    domain_of:
    - SampleEnv
    range: TomogramFeatures