Class: SolidPhaseExtractionProcess

A solid phase extraction (SPE) step (e.g., C18 desalting) performed as sample preparation.

URI: basalt_schema:SolidPhaseExtractionProcess

 classDiagram
    class SolidPhaseExtractionProcess
    click SolidPhaseExtractionProcess href "../SolidPhaseExtractionProcess/"
      SampleProcessing <|-- SolidPhaseExtractionProcess
        click SampleProcessing href "../SampleProcessing/"

      SolidPhaseExtractionProcess : description

      SolidPhaseExtractionProcess : id

      SolidPhaseExtractionProcess : in_protocol





        SolidPhaseExtractionProcess --> "0..1" SampleProcessingProtocol : in_protocol
        click SampleProcessingProtocol href "../SampleProcessingProtocol/"



      SolidPhaseExtractionProcess : lims_protocol_instance_id

      SolidPhaseExtractionProcess : name

      SolidPhaseExtractionProcess : uses_chromatography





        SolidPhaseExtractionProcess --> "0..1" ChromatographyConfiguration : uses_chromatography
        click ChromatographyConfiguration href "../ChromatographyConfiguration/"

Inheritance

SampleProcessing
- SolidPhaseExtractionProcess

Slots

Name	Cardinality and Range	Description	Inheritance
lims_protocol_instance_id	0..1 Integer	Reference to the L7 protocol_instance that corresponds to this sample process...	direct
uses_chromatography	0..1 ChromatographyConfiguration	Points to a record of the chromatography configuration used to separate analy...	direct
name	1 String	Human-readable name for the entity or activity	SampleProcessing
description	0..1 String	Human-readable description for the entity or activity	SampleProcessing
in_protocol	0..1 SampleProcessingProtocol	The SampleProcessingProtocol (the recipe) that this step follows	SampleProcessing
id	1 Uuid		SampleProcessing

Identifier and Mapping Information

Schema Source

from schema: https://emsl-computing.github.io/BASALT-Schema

Mappings

Mapping Type	Mapped Value
self	basalt_schema:SolidPhaseExtractionProcess
native	basalt_schema:SolidPhaseExtractionProcess

LinkML Source

Direct

name: SolidPhaseExtractionProcess
description: A solid phase extraction (SPE) step (e.g., C18 desalting) performed as
  sample preparation.
from_schema: https://emsl-computing.github.io/BASALT-Schema
is_a: SampleProcessing
slots:
- lims_protocol_instance_id
- uses_chromatography

Induced

name: SolidPhaseExtractionProcess
description: A solid phase extraction (SPE) step (e.g., C18 desalting) performed as
  sample preparation.
from_schema: https://emsl-computing.github.io/BASALT-Schema
is_a: SampleProcessing
attributes:
  lims_protocol_instance_id:
    name: lims_protocol_instance_id
    description: Reference to the L7 protocol_instance that corresponds to this sample
      processing step, if applicable.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: lims_protocol_instance_id
    owner: SolidPhaseExtractionProcess
    domain_of:
    - MassSpectrometryConfiguration
    - FractionationProcess
    - ProteinQuantification
    - ResuspensionProcess
    - SolidPhaseExtractionProcess
    range: integer
  uses_chromatography:
    name: uses_chromatography
    description: Points to a record of the chromatography configuration used to separate
      analytes.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: uses_chromatography
    owner: SolidPhaseExtractionProcess
    domain_of:
    - RIDataGenerationActivity
    - UVDataGenerationActivity
    - MassSpectrometryDataGenerationActivity
    - FractionationProcess
    - SolidPhaseExtractionProcess
    range: ChromatographyConfiguration
  name:
    name: name
    description: Human-readable name for the entity or activity.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: name
    owner: SolidPhaseExtractionProcess
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - Instrument
    - OntologyClass
    - ContainerAxis
    - SampleProcessing
    - Configuration
    - CalibrationStandardRun
    - PurchasedMaterial
    - organism
    - Site
    - Sample
    - SamplingActivity
    - SoilSamplingActivity
    - SampleProcessingProtocol
    - SampleProcessingRun
    - Study
    - SoftwareControlledTermValue
    range: string
    required: true
  description:
    name: description
    description: Human-readable description for the entity or activity
    title: description
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: description
    owner: SolidPhaseExtractionProcess
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - DataProcessingActivity
    - OntologyClass
    - ContainerType
    - LabDevice
    - SampleProcessing
    - Configuration
    - CalibrationStandardRun
    - PurchasedMaterial
    - organism
    - Site
    - Sample
    - SamplingActivity
    - SoilSamplingActivity
    - SampleProcessingProtocol
    - SampleProcessingRun
    - Study
    - TimestampValue
    - TextValue
    - SoftwareControlledTermValue
    - ControlledTermValue
    - QuantityValue
    range: string
  in_protocol:
    name: in_protocol
    description: 'The SampleProcessingProtocol (the recipe) that this step follows.
      Type-level, not instance-level: every execution of the same SOP points at the
      same record, so this does NOT identify a particular chain. Use in_run for that.
      A chain may mix protocols, so this is recorded per step rather than per run.'
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: in_protocol
    owner: SolidPhaseExtractionProcess
    domain_of:
    - SampleProcessing
    range: SampleProcessingProtocol
  id:
    name: id
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    identifier: true
    alias: id
    owner: SolidPhaseExtractionProcess
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - DataProcessingActivity
    - AlternativeIdentifier
    - FunctionalAnnotationIdentifier
    - Instrument
    - OntologyClass
    - ContainerType
    - Custodian
    - InstrumentAlternativeIdentifier
    - LabDevice
    - SampleProcessing
    - ProcessingSampleLink
    - Configuration
    - MobilePhaseSegment
    - MobilePhase
    - MobilePhaseSubstance
    - CalibrationStandardRun
    - PurchasedMaterial
    - MAOMProduct
    - WEOMProduct
    - organism
    - Site
    - Sample
    - AerosolArmSample
    - AerosolSample
    - AMP2UserSample
    - CommerciallyPurchasedSample
    - CultureEnvironmentalSample
    - EngineeredStrainSample
    - FieldDeployedTerraformSample
    - MixedCultureSample
    - MonetSoilSample
    - OtherUndescribedSample
    - PlantSample
    - PureCultureSample
    - SedimentSample
    - SoilSample
    - SynthesizedMaterialSample
    - TerraformSample
    - WaterSample
    - ProcessedSample
    - CoreSection
    - SamplingActivity
    - AerosolArmSamplingActivity
    - AerosolSamplingActivity
    - CommerciallyPurchasedSamplingActivity
    - CultureEnvironmentalSamplingActivity
    - EngineeredStrainSamplingActivity
    - FieldDeployedTerraformSamplingActivity
    - MixedCultureSamplingActivity
    - MonetSoilSamplingActivity
    - OtherUndescribedSamplingActivity
    - PlantSamplingActivity
    - PureCultureSamplingActivity
    - SedimentSamplingActivity
    - SoilSamplingActivity
    - SynthesizedMaterialSamplingActivity
    - TerraformSamplingActivity
    - WaterSamplingActivity
    - SampleProcessingProtocol
    - SampleProcessingRun
    - SubstancesUsedLink
    - SampleProcessingSubstance
    - Study
    - ProjectParticipant
    - TimestampValue
    - TextValue
    - SoftwareControlledTermValue
    - ControlledTermValue
    - PersonValue
    - QuantityValue
    - ConditioningValue
    - zipDownload
    range: uuid
    required: true