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Class: DeliverySystem

How a treatment's active agent is carried to its target - the formulation platform, any targeting ligand on the carrier, the receptor that ligand binds, and the cell type the carrier is aimed at. Attach via the delivery_system slot on a Treatment of any modality: the carrier is a property of the formulation, not of the payload chemistry, so an mRNA lipid nanoparticle, an albumin-bound small molecule, a liposomal cytotoxic, and a GalNAc-conjugated siRNA are all described here by the same four attributes.

Two facts that used to be inexpressible are the reason this class exists. A carrier could only be recorded inside oligonucleotide_details, so no non-oligonucleotide formulation had a home for it - nab-sirolimus and liposomal irinotecan were curated with the carrier visible only in free-text prose. And there was nowhere to say what a targeted particle is aimed at, which is the whole claim of a receptor-targeted nanomedicine: an anti-TREM2-coated mRNA lipid nanoparticle is aimed at tumor-associated macrophages, and that is a citable, falsifiable statement about the delivery system rather than about the drug.

The targeting slots are optional and an untargeted carrier is a normal record: a PEGylated liposome relies on passive accumulation and has no ligand, no receptor, and no target cell type. Leave them absent rather than asserting a target the formulation does not have.

URI: dismech:class/DeliverySystem

 classDiagram
    class DeliverySystem
    click DeliverySystem href "../../classes/DeliverySystem/"
      DeliverySystem : delivery_platform





        DeliverySystem --> "0..1" DeliveryPlatformEnum : delivery_platform
        click DeliveryPlatformEnum href "../../enums/DeliveryPlatformEnum/"



      DeliverySystem : description

      DeliverySystem : evidence





        DeliverySystem --> "* _recommended_" EvidenceItem : evidence
        click EvidenceItem href "../../classes/EvidenceItem/"



      DeliverySystem : notes

      DeliverySystem : target_cell_types





        DeliverySystem --> "*" CellTypeDescriptor : target_cell_types
        click CellTypeDescriptor href "../../classes/CellTypeDescriptor/"



      DeliverySystem : targeting_ligand





        DeliverySystem --> "0..1" TargetingLigandEnum : targeting_ligand
        click TargetingLigandEnum href "../../enums/TargetingLigandEnum/"



      DeliverySystem : targeting_receptor





        DeliverySystem --> "0..1" GeneDescriptor : targeting_receptor
        click GeneDescriptor href "../../classes/GeneDescriptor/"

Slots

Name Cardinality and Range Description Inheritance
delivery_platform 0..1
DeliveryPlatformEnum		 How the active agent is carried to its target tissue - unformulated, ligand c... direct
targeting_ligand 0..1
TargetingLigandEnum		 Targeting ligand attached to the active agent, or to the carrier particle hol... direct
targeting_receptor 0..1
GeneDescriptor		 The cell-surface receptor or antigen that the targeting ligand binds, bindabl... direct
target_cell_types *
CellTypeDescriptor		 The cell type(s) a targeted delivery system is aimed at, bindable to CL direct
description 0..1
String		 direct
evidence * recommended
EvidenceItem		 direct
notes 0..1
String		 direct

Usages

used by used in type used
Treatment delivery_system range DeliverySystem

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/monarch-initiative/dismech

Mappings

Mapping Type Mapped Value
self dismech:DeliverySystem
native dismech:DeliverySystem

LinkML Source

Direct

name: DeliverySystem
description: 'How a treatment''s active agent is carried to its target - the formulation
  platform, any targeting ligand on the carrier, the receptor that ligand binds, and
  the cell type the carrier is aimed at. Attach via the delivery_system slot on a
  Treatment of any modality: the carrier is a property of the formulation, not of
  the payload chemistry, so an mRNA lipid nanoparticle, an albumin-bound small molecule,
  a liposomal cytotoxic, and a GalNAc-conjugated siRNA are all described here by the
  same four attributes.

  Two facts that used to be inexpressible are the reason this class exists. A carrier
  could only be recorded inside oligonucleotide_details, so no non-oligonucleotide
  formulation had a home for it - nab-sirolimus and liposomal irinotecan were curated
  with the carrier visible only in free-text prose. And there was nowhere to say what
  a targeted particle is aimed at, which is the whole claim of a receptor-targeted
  nanomedicine: an anti-TREM2-coated mRNA lipid nanoparticle is aimed at tumor-associated
  macrophages, and that is a citable, falsifiable statement about the delivery system
  rather than about the drug.

  The targeting slots are optional and an untargeted carrier is a normal record: a
  PEGylated liposome relies on passive accumulation and has no ligand, no receptor,
  and no target cell type. Leave them absent rather than asserting a target the formulation
  does not have.'
from_schema: https://w3id.org/monarch-initiative/dismech
slots:
- delivery_platform
- targeting_ligand
- targeting_receptor
- target_cell_types
- description
- evidence
- notes

Induced

name: DeliverySystem
description: 'How a treatment''s active agent is carried to its target - the formulation
  platform, any targeting ligand on the carrier, the receptor that ligand binds, and
  the cell type the carrier is aimed at. Attach via the delivery_system slot on a
  Treatment of any modality: the carrier is a property of the formulation, not of
  the payload chemistry, so an mRNA lipid nanoparticle, an albumin-bound small molecule,
  a liposomal cytotoxic, and a GalNAc-conjugated siRNA are all described here by the
  same four attributes.

  Two facts that used to be inexpressible are the reason this class exists. A carrier
  could only be recorded inside oligonucleotide_details, so no non-oligonucleotide
  formulation had a home for it - nab-sirolimus and liposomal irinotecan were curated
  with the carrier visible only in free-text prose. And there was nowhere to say what
  a targeted particle is aimed at, which is the whole claim of a receptor-targeted
  nanomedicine: an anti-TREM2-coated mRNA lipid nanoparticle is aimed at tumor-associated
  macrophages, and that is a citable, falsifiable statement about the delivery system
  rather than about the drug.

  The targeting slots are optional and an untargeted carrier is a normal record: a
  PEGylated liposome relies on passive accumulation and has no ligand, no receptor,
  and no target cell type. Leave them absent rather than asserting a target the formulation
  does not have.'
from_schema: https://w3id.org/monarch-initiative/dismech
attributes:
  delivery_platform:
    name: delivery_platform
    description: 'How the active agent is carried to its target tissue - unformulated,
      ligand conjugate, lipid nanoparticle, liposome, albumin-bound particle, viral
      vector. Orthogonal to targeting_ligand: an unconjugated agent may still be delivered
      in a nanoparticle. Prefer the Treatment-level delivery_system block, which carries
      this slot alongside the targeting detail; the copy nested in oligonucleotide_details
      predates it and stays valid.'
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: delivery_platform
    owner: DeliverySystem
    domain_of:
    - OligonucleotideDetail
    - DeliverySystem
    range: DeliveryPlatformEnum
  targeting_ligand:
    name: targeting_ligand
    description: 'Targeting ligand attached to the active agent, or to the carrier
      particle holding it, to direct uptake by a particular tissue or cell type. Orthogonal
      to delivery_platform: an unconjugated agent may still travel in a nanoparticle,
      and a nanoparticle may carry a ligand on its surface.'
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: targeting_ligand
    owner: DeliverySystem
    domain_of:
    - OligonucleotideDetail
    - DeliverySystem
    range: TargetingLigandEnum
  targeting_receptor:
    name: targeting_receptor
    description: The cell-surface receptor or antigen that the targeting ligand binds,
      bindable to HGNC (e.g., ASGR1 for a GalNAc conjugate, TREM2 for an anti-TREM2-coated
      nanoparticle). Record the receptor here and the ligand's chemical class in targeting_ligand
      - they are different facts, and a receptor may be reachable by more than one
      ligand.
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: targeting_receptor
    owner: DeliverySystem
    domain_of:
    - DeliverySystem
    range: GeneDescriptor
    inlined: true
  target_cell_types:
    name: target_cell_types
    description: 'The cell type(s) a targeted delivery system is aimed at, bindable
      to CL. This is the carrier''s intended destination, which is not always the
      cell the disease mechanism runs in: a macrophage-targeted particle may be aimed
      at reprogramming the macrophage rather than at the tumor cell beside it.'
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: target_cell_types
    owner: DeliverySystem
    domain_of:
    - DeliverySystem
    range: CellTypeDescriptor
    multivalued: true
    inlined: true
    inlined_as_list: true
  description:
    name: description
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: description
    owner: DeliverySystem
    domain_of:
    - Descriptor
    - DietaryModification
    - GenomicRegion
    - GeneticContext
    - Dataset
    - ExperimentalModel
    - Experiment
    - ExperimentalPerturbation
    - ExperimentalReadout
    - ExperimentalControl
    - ExecutableProtocol
    - ClinicalTrial
    - ComputationalModel
    - ModelVariable
    - DifferentialDiagnosis
    - Subtype
    - CausalEdge
    - TreatmentMechanismTarget
    - EnvironmentalMechanismTarget
    - ModelDivergence
    - ModelMechanismLink
    - BiomarkerReadout
    - PhenotypeReadout
    - SurrogateEndpointCollection
    - GeneClassificationCollection
    - ProteinStructure
    - ExternalAssertion
    - EpidemiologyInfo
    - Pathophysiology
    - Phenotype
    - HistopathologyFinding
    - ImagingFinding
    - Environmental
    - Disease
    - Stage
    - AgentLifeCycle
    - AgentLifeCycleStage
    - AnimalModel
    - Treatment
    - TreatmentEffectModifier
    - DeliverySystem
    - InfectiousAgent
    - Transmission
    - Assay
    - Diagnosis
    - Inheritance
    - Variant
    - VariantPopulationEffect
    - FunctionalEffect
    - Mechanism
    - ModelingConsideration
    - Definition
    - CriteriaSet
    - ConditionDescriptor
    - GOEnrichment
    - ComorbidityHypothesis
    - UpstreamConditionHypothesis
    - MechanisticHypothesis
    - Grouping
    - GroupingCriteria
    - LogicalCriterion
    - DifferentiatingMechanism
    - ModuleCollection
    - ModuleCollectionMember
    range: string
  evidence:
    name: evidence
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: evidence
    owner: DeliverySystem
    domain_of:
    - PhenotypeContext
    - Dataset
    - ExperimentalModel
    - Experiment
    - ExperimentalPerturbation
    - ExperimentalReadout
    - ExperimentalControl
    - ExecutableProtocol
    - ClinicalTrial
    - ComputationalModel
    - DifferentialDiagnosis
    - Subtype
    - CausalEdge
    - TreatmentMechanismTarget
    - EnvironmentalMechanismTarget
    - ModelDivergence
    - ModelMechanismLink
    - BiomarkerReadout
    - PhenotypeReadout
    - ReferenceRange
    - SurrogateEndpoint
    - ExternalAssertion
    - Finding
    - Prevalence
    - GeneCaseFraction
    - GeneDiseaseValidityAssertion
    - ProgressionInfo
    - ClinicalBurden
    - EpidemiologyInfo
    - Pathophysiology
    - Phenotype
    - Biochemical
    - HistopathologyFinding
    - ImagingFinding
    - Genetic
    - Environmental
    - Stage
    - AgentLifeCycle
    - AgentLifeCycleStage
    - AnimalModel
    - Treatment
    - TreatmentEffectModifier
    - DeliverySystem
    - InfectiousAgent
    - Transmission
    - Diagnosis
    - Inheritance
    - Variant
    - VariantPopulationEffect
    - ModelingConsideration
    - ClassificationAssignment
    - Definition
    - AlgorithmValidationStatus
    - CriteriaSet
    - AssociationSignal
    - AssociationStatistics
    - ComorbidityHypothesis
    - UpstreamConditionHypothesis
    - MechanisticHypothesis
    - Discussion
    - GroupingCriteria
    - GroupingMember
    - DifferentiatingMechanism
    - ModuleCollection
    - ModuleCollectionMember
    range: EvidenceItem
    recommended: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  notes:
    name: notes
    examples:
    - value: Contagious stage where symptoms appear and the bacteria can be spread
        to others.
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: notes
    owner: DeliverySystem
    domain_of:
    - GeneticContext
    - OnsetDescriptor
    - PhenotypeContext
    - Dataset
    - ExperimentalModel
    - Experiment
    - ExperimentalPerturbation
    - ExperimentalReadout
    - ExperimentalControl
    - ExecutableProtocol
    - ClinicalTrial
    - ComputationalModel
    - ModelVariable
    - DifferentialDiagnosis
    - ReferenceRange
    - SurrogateEndpoint
    - SurrogateEndpointCollection
    - GeneClassification
    - GeneClassificationCollection
    - ExternalAssertion
    - TrackedIssue
    - Prevalence
    - GeneCaseFraction
    - GeneDiseaseValidityAssertion
    - ProgressionInfo
    - ClinicalBurden
    - EpidemiologyInfo
    - Pathophysiology
    - Phenotype
    - Biochemical
    - HistopathologyFinding
    - ImagingFinding
    - Genetic
    - Environmental
    - Disease
    - Stage
    - AgentLifeCycle
    - AgentLifeCycleStage
    - AnimalModel
    - Treatment
    - TreatmentEffectModifier
    - DeliverySystem
    - Transmission
    - Diagnosis
    - VariantPopulationEffect
    - ClassificationAssignment
    - Definition
    - CriteriaSet
    - TermMapping
    - MappingConsistency
    - ComorbidityAssociation
    - AssociationSignal
    - AssociationMetric
    - AssociationStatistics
    - MechanisticHypothesis
    - Discussion
    - Grouping
    - GroupingCriteria
    - GroupingMember
    - DifferentiatingMechanism
    - ModuleCollection
    - ModuleCollectionMember
    range: string