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Class: EnvironmentalMechanismTarget

Links an environmental factor or exposure to a specific pathophysiology mechanism node it acts on. The environmental counterpart of TreatmentMechanismTarget: it places exposures inside the causal graph as upstream initiating (or protective) steps instead of leaving them as a disconnected disease-level list.

URI: dismech:class/EnvironmentalMechanismTarget

 classDiagram
    class EnvironmentalMechanismTarget
    click EnvironmentalMechanismTarget href "../../classes/EnvironmentalMechanismTarget/"
      EnvironmentalMechanismTarget : causal_link_type





        EnvironmentalMechanismTarget --> "0..1" CausalLinkTypeEnum : causal_link_type
        click CausalLinkTypeEnum href "../../enums/CausalLinkTypeEnum/"



      EnvironmentalMechanismTarget : description

      EnvironmentalMechanismTarget : environmental_effect





        EnvironmentalMechanismTarget --> "0..1" EnvironmentalEffectEnum : environmental_effect
        click EnvironmentalEffectEnum href "../../enums/EnvironmentalEffectEnum/"



      EnvironmentalMechanismTarget : evidence





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



      EnvironmentalMechanismTarget : target

Slots

Name Cardinality and Range Description Inheritance
target 1
String		 Name of the pathograph node this environmental factor acts on direct
environmental_effect 0..1
EnvironmentalEffectEnum		 How the exposure acts on the target direct
causal_link_type 0..1
CausalLinkTypeEnum		 Whether the exposure acts directly on the target mechanism or through omitted... direct
description 0..1
String		 direct
evidence * recommended
EvidenceItem		 Evidence that this exposure acts on this specific mechanism direct

Usages

used by used in type used
Environmental influences_mechanisms range EnvironmentalMechanismTarget

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: EnvironmentalMechanismTarget
description: 'Links an environmental factor or exposure to a specific pathophysiology
  mechanism node it acts on. The environmental counterpart of TreatmentMechanismTarget:
  it places exposures inside the causal graph as upstream initiating (or protective)
  steps instead of leaving them as a disconnected disease-level list.'
from_schema: https://w3id.org/monarch-initiative/dismech
slots:
- target
- environmental_effect
- causal_link_type
- description
- evidence
slot_usage:
  target:
    name: target
    description: Name of the pathograph node this environmental factor acts on. Prefer
      a pathophysiology entry; phenotype targets are also allowed when the exposure
      acts directly on a clinical manifestation rather than an upstream mechanism
      node. Must match a pathophysiology or phenotype name in the same disease file.
    required: true
  environmental_effect:
    name: environmental_effect
    description: How the exposure acts on the target. Omit only when the direction
      of effect is genuinely unstated in the cited evidence.
  causal_link_type:
    name: causal_link_type
    description: Whether the exposure acts directly on the target mechanism or through
      omitted (known or unknown) intermediates.
  evidence:
    name: evidence
    description: Evidence that this exposure acts on this specific mechanism

Induced

name: EnvironmentalMechanismTarget
description: 'Links an environmental factor or exposure to a specific pathophysiology
  mechanism node it acts on. The environmental counterpart of TreatmentMechanismTarget:
  it places exposures inside the causal graph as upstream initiating (or protective)
  steps instead of leaving them as a disconnected disease-level list.'
from_schema: https://w3id.org/monarch-initiative/dismech
slot_usage:
  target:
    name: target
    description: Name of the pathograph node this environmental factor acts on. Prefer
      a pathophysiology entry; phenotype targets are also allowed when the exposure
      acts directly on a clinical manifestation rather than an upstream mechanism
      node. Must match a pathophysiology or phenotype name in the same disease file.
    required: true
  environmental_effect:
    name: environmental_effect
    description: How the exposure acts on the target. Omit only when the direction
      of effect is genuinely unstated in the cited evidence.
  causal_link_type:
    name: causal_link_type
    description: Whether the exposure acts directly on the target mechanism or through
      omitted (known or unknown) intermediates.
  evidence:
    name: evidence
    description: Evidence that this exposure acts on this specific mechanism
attributes:
  target:
    name: target
    description: Name of the pathograph node this environmental factor acts on. Prefer
      a pathophysiology entry; phenotype targets are also allowed when the exposure
      acts directly on a clinical manifestation rather than an upstream mechanism
      node. Must match a pathophysiology or phenotype name in the same disease file.
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: target
    owner: EnvironmentalMechanismTarget
    domain_of:
    - ExperimentalPerturbation
    - ExperimentalReadout
    - CausalEdge
    - TreatmentMechanismTarget
    - EnvironmentalMechanismTarget
    - ModelMechanismLink
    - BiomarkerReadout
    - PhenotypeReadout
    range: string
    required: true
  environmental_effect:
    name: environmental_effect
    description: How the exposure acts on the target. Omit only when the direction
      of effect is genuinely unstated in the cited evidence.
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: environmental_effect
    owner: EnvironmentalMechanismTarget
    domain_of:
    - EnvironmentalMechanismTarget
    range: EnvironmentalEffectEnum
  causal_link_type:
    name: causal_link_type
    description: Whether the exposure acts directly on the target mechanism or through
      omitted (known or unknown) intermediates.
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: causal_link_type
    owner: EnvironmentalMechanismTarget
    domain_of:
    - CausalEdge
    - EnvironmentalMechanismTarget
    range: CausalLinkTypeEnum
  description:
    name: description
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: description
    owner: EnvironmentalMechanismTarget
    domain_of:
    - Descriptor
    - DietaryModification
    - GeneticContext
    - Dataset
    - ExperimentalModel
    - Experiment
    - ExperimentalPerturbation
    - ExperimentalReadout
    - ExperimentalControl
    - ClinicalTrial
    - ComputationalModel
    - ModelVariable
    - DifferentialDiagnosis
    - Subtype
    - CausalEdge
    - TreatmentMechanismTarget
    - EnvironmentalMechanismTarget
    - ModelDivergence
    - ModelMechanismLink
    - BiomarkerReadout
    - PhenotypeReadout
    - SurrogateEndpointCollection
    - ProteinStructure
    - ExternalAssertion
    - EpidemiologyInfo
    - Pathophysiology
    - Phenotype
    - HistopathologyFinding
    - ImagingFinding
    - Environmental
    - Disease
    - Stage
    - AgentLifeCycle
    - AgentLifeCycleStage
    - AnimalModel
    - Treatment
    - InfectiousAgent
    - Transmission
    - Assay
    - Diagnosis
    - Inheritance
    - Variant
    - FunctionalEffect
    - Mechanism
    - ModelingConsideration
    - Definition
    - CriteriaSet
    - ConditionDescriptor
    - GOEnrichment
    - ComorbidityHypothesis
    - UpstreamConditionHypothesis
    - MechanisticHypothesis
    - Grouping
    - GroupingCriteria
    - LogicalCriterion
    - DifferentiatingMechanism
    - ModuleCollection
    - ModuleCollectionMember
    range: string
  evidence:
    name: evidence
    description: Evidence that this exposure acts on this specific mechanism
    from_schema: https://w3id.org/monarch-initiative/dismech
    rank: 1000
    alias: evidence
    owner: EnvironmentalMechanismTarget
    domain_of:
    - PhenotypeContext
    - Dataset
    - ExperimentalModel
    - Experiment
    - ExperimentalPerturbation
    - ExperimentalReadout
    - ExperimentalControl
    - ClinicalTrial
    - ComputationalModel
    - DifferentialDiagnosis
    - Subtype
    - CausalEdge
    - TreatmentMechanismTarget
    - EnvironmentalMechanismTarget
    - ModelDivergence
    - ModelMechanismLink
    - BiomarkerReadout
    - PhenotypeReadout
    - ReferenceRange
    - SurrogateEndpoint
    - ExternalAssertion
    - Finding
    - Prevalence
    - GeneCaseFraction
    - ProgressionInfo
    - ClinicalBurden
    - EpidemiologyInfo
    - Pathophysiology
    - Phenotype
    - Biochemical
    - HistopathologyFinding
    - ImagingFinding
    - Genetic
    - Environmental
    - Stage
    - AgentLifeCycle
    - AgentLifeCycleStage
    - AnimalModel
    - Treatment
    - InfectiousAgent
    - Transmission
    - Diagnosis
    - Inheritance
    - Variant
    - 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