Ontology Documentation generated by WIDOCO
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Source:
https://w3id.org/peh/peh-model
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Revision: 0.7.3.
Provenance of this page
Ontology Specification Draft

Abstract

The Personal Exposure and Health (PEH) data model provides a domain-specific structure for the data and metadata involved in human biomonitoring and personal exposure research. It supports annotation with harmonised vocabularies and provides a generic observed-data abstraction layer that facilitates broader cross-domain interoperability.

Introduction back to ToC

The PEH data model is the result of consolidation and harmonisation efforts in the human biomonitoring research field, together with an initiative to broaden the model's scope so it can include additional sources of relevant information such as environmental and geospatial observations. The model is defined using LinkML and published as ontology serializations for downstream semantic systems. It mainly supports the annotation of observations and their observable properties, aligns with established semantic models such as SOSA and I-ADOPT, and supports the construction and maintenance of project vocabularies for matrices, biochemical entities, indicators and related controlled terms.

PEH-Model focused documentation profile: Overview back to ToC

This ontology has the following classes and properties.

Classes

Object Properties

Data Properties

PEH-Model focused documentation profile: Description back to ToC

Entity and relation ontology and datamodel for Personal Exposure and Health data

Cross-reference for PEH-Model focused documentation profile classes, object properties and data properties back to ToC

This section provides details for each class and property defined by PEH-Model focused documentation profile.

Classes

BioChemEntityc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/BioChemEntity

A biological, chemical or biochemical entity that is relevant to the Personal Exposure and Health domain

has super-classes
NamedThing c
is in domain of
alternateName dp, broader op, comment dp, description dp, exactMatch dp, hasContextAlias op, hasCurrentValidationStatus dp, hasGroupLabel dp, hasMolecularWeight dp, hasRole op, hasTranslation op, hasUiLabel dp, hasValidationHistoryRecord op, identifier dp, isIsomerOf op, isMetaboliteOf op, label dp, subClassOf op, wasAttributedTo dp
is in range of
hasBioChemEntity op, isIsomerOf op, isMetaboliteOf op, subClassOf op

BioChemRolec back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/BioChemRole

A role is particular behaviour which a material entity may exhibit.

has super-classes
Thing c
is in range of
hasRole op

CalculationDesignc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/CalculationDesign

Definition of a calculation method for deriving an observational value from other variables and/or contexts

has super-classes
Thing c
is in range of
hasCalculationDesign op

ContextAliasc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ContextAlias

An alternative term as it is used in a known scope or context (e.g. a community, project or study) for any of the entities and its properties

has super-classes
Thing c
is in range of
hasContextAlias op

DerivedObservationc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/DerivedObservation

An observation in which all observed values are derived from a prior observation through analytical or statistical processing.

has super-classes
Observation c
is in domain of
alternateName dp, comment dp, description dp, exactMatch dp, hasObservationDesign op, hasObservationResult op, hasObservationType dp, hasUiLabel dp, identifier dp, label dp, wasDerivedFrom op

Groupingc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/Grouping

A generic grouping entity that allows categorising entities in a hierarchical structure

has super-classes
NamedThing c
is in range of
broader op

IAdoptConstraintc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/IAdoptConstraint

Structured I-ADOPT constraint used when projecting an indicator to an I-ADOPT Variable. Constraints are usually serialized as blank nodes with a human-readable label, but may carry an identifier when a reusable constraint resource is needed. The constraint node is typed as iop:Constraint and constrains a matrix, object of interest, statistical modifier, or other entity.

has super-classes
Thing c
is in range of
hasConstraint op

IAdoptVariablec back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/IAdoptVariable

Placeholder class for actual IAdoptVariable

has super-classes
Thing c
is in range of
hasVariable op

Indicatorc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/Indicator

Any measurable or observable variable that can describe data or context in the Personal Exposure and Health domain. Intentionally aligns with the I-Adopt variable class.

has super-classes
NamedThing c
is in domain of
alternateName dp, broader op, comment dp, description dp, exactMatch dp, hasBioChemEntity op, hasConstraint op, hasContextAlias op, hasIndicatorType dp, hasMatrix op, hasProperty dp, hasQuantityKind op, hasRelevantObservableEntityType dp, hasTranslation op, hasUiLabel dp, identifier dp, label dp, subClassOf op, wasAttributedTo dp
is in range of
subClassOf op, type op

Matrixc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/Matrix

The physical medium or biological substrate from which a biomarker, or other analyte is quantified in observational studies

has super-classes
NamedThing c
is in domain of
alternateName dp, comment dp, description dp, exactMatch dp, hasContextAlias op, hasTranslation op, hasUiLabel dp, identifier dp, label dp, subClassOf op, wasAttributedTo dp
is in range of
hasMatrix op, subClassOf op

NamedThingc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/NamedThing

An abstract model for any of the identifiable entities

has super-classes
Thing c
has sub-classes
BioChemEntity c, Grouping c, Indicator c, Matrix c, ObservableProperty c, Observation c, ObservationDesign c, ObservationResult c, PhysicalEntity c
is in range of
wasDerivedFrom op

ObservablePropertyc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ObservableProperty

A fully defined variable that allows registering an observation about any of the entities relevant to Personal Exposure and Health research

has super-classes
NamedThing c
is in domain of
alternateName dp, broader op, comment dp, description dp, exactMatch dp, hasCalculationDesign op, hasContextAlias op, hasMaximumValue dp, hasMinimumValue dp, hasObservationResultType dp, hasQuantityKind op, hasRelevantObservableEntityType dp, hasRelevantObservationType dp, hasSignificantDecimals dp, hasTranslation op, hasUiLabel dp, hasUnit op, hasValidationDesign op, hasValueMetadata op, hasValueOption op, hasValueType dp, hasVariable op, identifier dp, isCategorical dp, isImmutable dp, isMultivalued dp, isRequired dp, isZeroAllowed dp, label dp, type op

ObservablePropertyMetadataElementc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ObservablePropertyMetadataElement

Key-value element that adds contextual metadata to an Observable Property instance

has super-classes
Thing c
is in range of
hasValueMetadata op

ObservablePropertyValueOptionc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ObservablePropertyValueOption

Potential selection choices for Observable Properties that are categorical variables

has super-classes
Thing c
is in range of
hasValueOption op

Observationc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/Observation

The registration of the intent to perform a set of observations as well as the resulting observed values

has super-classes
NamedThing c
has sub-classes
DerivedObservation c
is in domain of
alternateName dp, comment dp, description dp, exactMatch dp, hasObservationDesign op, hasObservationResult op, hasObservationType dp, hasUiLabel dp, identifier dp, label dp
is in range of
hasObservation op

ObservationDesignc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ObservationDesign

The setup of the observation, listing the study entity type being observed (and -optionally- the entities), as well as the the properties being recorded

has super-classes
NamedThing c
is in range of
hasObservationDesign op

ObservationGroupc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ObservationGroup

A grouped collection of observations, intended and/or executed, as part of a Personal Exposure and Health research study

has super-classes
Thing c
is in domain of
alternateName dp, comment dp, description dp, endDate dp, exactMatch dp, hasObservation op, hasPhysicalEntity op, hasStudyEntityLink op, hasUiLabel dp, identifier dp, label dp, startDate dp

ObservationResultc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ObservationResult

The result of an observational effort in Personal Exposure and Health research

has super-classes
NamedThing c
is in range of
hasObservationResult op

PhysicalEntityc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/PhysicalEntity

A digital placeholder for a physical entity as it exists in the real world,

has super-classes
NamedThing c
is in range of
hasPhysicalEntity op

QUDTQuantityKindc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/QUDTQuantityKind

has super-classes
Thing c
is in range of
hasQuantityKind op

QUDTUnitc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/QUDTUnit

has super-classes
Thing c
is in range of
hasUnit op

Translationc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/Translation

A translation for any of the entity properties, defining the property, the language and the translated term

has super-classes
Thing c
is in range of
hasTranslation op

ValidationDesignc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ValidationDesign

Definition of a validation rule for automatically imposing business logic constraints

has super-classes
Thing c
is in range of
hasValidationDesign op

ValidationHistoryRecordc back to ToC or Class ToC

IRI: https://w3id.org/peh/terms/ValidationHistoryRecord

A list of events representing a historical record on the entity validation status

has super-classes
Thing c
is in range of
hasValidationHistoryRecord op

Variablec back to ToC or Class ToC

IRI: https://w3id.org/iadopt/ont/Variable

is equivalent to
Indicator c

Object Properties

broaderop back to ToC or Object Property ToC

IRI: http://www.w3.org/2004/02/skos/core#broader

has domain
BioChemEntity c
Indicator c
ObservableProperty c
has range
Grouping c

hasBioChemEntityop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasBioChemEntity

has domain
Indicator c
has range
BioChemEntity c

hasCalculationDesignop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasCalculationDesign

has domain
ObservableProperty c
has range
CalculationDesign c

hasConstraintop back to ToC or Object Property ToC

IRI: https://w3id.org/iadopt/ont/hasConstraint

has domain
Indicator c
has range
IAdoptConstraint c

hasContextAliasop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasContextAlias

has domain
BioChemEntity c
Indicator c
Matrix c
ObservableProperty c
has range
ContextAlias c

hasMatrixop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasMatrix

has domain
Indicator c
has range
Matrix c

hasObservationop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasObservation

has domain
ObservationGroup c
has range
Observation c

hasObservationDesignop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasObservationDesign

has domain
DerivedObservation c
Observation c
has range
ObservationDesign c

hasObservationResultop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasObservationResult

has domain
DerivedObservation c
Observation c
has range
ObservationResult c

hasPhysicalEntityop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasPhysicalEntity

has domain
ObservationGroup c
has range
PhysicalEntity c

hasQuantityKindop back to ToC or Object Property ToC

IRI: https://qudt.org/schema/qudt/hasQuantityKind

has domain
Indicator c
ObservableProperty c
has range
QUDTQuantityKind c

hasRoleop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasRole

has domain
BioChemEntity c
has range
BioChemRole c

hasTranslationop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasTranslation

has domain
BioChemEntity c
Indicator c
Matrix c
ObservableProperty c
has range
Translation c

hasUnitop back to ToC or Object Property ToC

IRI: https://qudt.org/schema/qudt/hasUnit

has domain
ObservableProperty c
has range
QUDTUnit c

hasValidationDesignop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasValidationDesign

has domain
ObservableProperty c
has range
ValidationDesign c

hasValidationHistoryRecordop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasValidationHistoryRecord

has domain
BioChemEntity c
has range
ValidationHistoryRecord c

hasValueMetadataop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasValueMetadata

has domain
ObservableProperty c
has range
ObservablePropertyMetadataElement c

hasValueOptionop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasValueOption

has domain
ObservableProperty c
has range
ObservablePropertyValueOption c

hasVariableop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/hasVariable

has domain
ObservableProperty c
has range
IAdoptVariable c

isIsomerOfop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/isIsomerOf

Indicates that this molecular entity is an isomer of another molecular entity

has domain
BioChemEntity c
has range
BioChemEntity c

isMetaboliteOfop back to ToC or Object Property ToC

IRI: https://w3id.org/peh/terms/isMetaboliteOf

Indicates that this molecular entity is a metabolite of another molecular entity

has domain
BioChemEntity c
has range
BioChemEntity c

subClassOfop back to ToC or Object Property ToC

IRI: http://www.w3.org/2000/01/rdf-schema#subClassOf

has domain
BioChemEntity c
Indicator c
Matrix c
has range
BioChemEntity c
Indicator c
Matrix c

typeop back to ToC or Object Property ToC

IRI: http://www.w3.org/1999/02/22-rdf-syntax-ns#type

has domain
ObservableProperty c
has range
Indicator c

wasDerivedFromop back to ToC or Object Property ToC

IRI: http://www.w3.org/ns/prov#wasDerivedFrom

has domain
DerivedObservation c
has range
NamedThing c

Data Properties

alternateNamedp back to ToC or Data Property ToC

IRI: http://schema.org/alternateName

Shortened name or code, preferrably unique within the context the entity is (typically) used in.

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
string

commentdp back to ToC or Data Property ToC

IRI: http://schema.org/comment

Additional comment, note or remark providing context on the use of an entity or the interpretation of its properties.

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
string

descriptiondp back to ToC or Data Property ToC

IRI: http://schema.org/description

Long form description or definition for the entity.

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
string

endDatedp back to ToC or Data Property ToC

IRI: http://schema.org/endDate

has domain
ObservationGroup c
has range
date

exactMatchdp back to ToC or Data Property ToC

IRI: http://www.w3.org/2004/02/skos/core#exactMatch

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
any U R I

hasCurrentValidationStatusdp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasCurrentValidationStatus

has domain
BioChemEntity c
has range
string

hasGroupLabeldp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasGroupLabel

has domain
BioChemEntity c
has range
string

hasIndicatorTypedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasIndicatorType

has domain
Indicator c
has range
string

hasMaximumValuedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasMaximumValue

String representation of the expected upper bound in observations, usable for data validation

has domain
ObservableProperty c
has range
string

hasMinimumValuedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasMinimumValue

String representation of the expected lower bound in observations, usable for data validation

has domain
ObservableProperty c
has range
string

hasMolecularWeightdp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasMolecularWeight

The molecular weight of the chemical entity in g/mol

has domain
BioChemEntity c
has range
decimal

hasObservationResultTypedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasObservationResultType

has domain
ObservableProperty c
has range
string

hasObservationTypedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasObservationType

has domain
DerivedObservation c
Observation c
has range
string

hasPropertydp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasProperty

Any property that cannot be expressed as a QUDTQuantityKind

has domain
Indicator c
has range
string

hasRelevantObservableEntityTypedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasRelevantObservableEntityType

has domain
Indicator c
ObservableProperty c
has range
string

hasRelevantObservationTypedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasRelevantObservationType

has domain
ObservableProperty c
has range
string

hasSignificantDecimalsdp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasSignificantDecimals

Variable precision indication, expressed as the number of significant decimals

has domain
ObservableProperty c
has range
integer

hasUiLabeldp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasUiLabel

Human readable label, to be used in user interactions through forms or documents.

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
string

hasValueTypedp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/hasValueType

has domain
ObservableProperty c
has range
string

identifierdp back to ToC or Data Property ToC

IRI: http://schema.org/identifier

Machine readable, unique identifier; ideally a URI/GUPRI (Globally Unique, Persistent, Resolvable Identifier).

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
any U R I

isCategoricaldp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/isCategorical

has domain
ObservableProperty c
has range
boolean

isImmutabledp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/isImmutable

Variable values are not expected to change over time (e.g. birthdate of a person)

has domain
ObservableProperty c
has range
boolean

isMultivalueddp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/isMultivalued

has domain
ObservableProperty c
has range
boolean

isRequireddp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/isRequired

has domain
ObservableProperty c
has range
boolean

isZeroAlloweddp back to ToC or Data Property ToC

IRI: https://w3id.org/peh/terms/isZeroAllowed

has domain
ObservableProperty c
has range
boolean

labeldp back to ToC or Data Property ToC

IRI: http://www.w3.org/2000/01/rdf-schema#label

Common human readable name

has domain
BioChemEntity c
DerivedObservation c
Indicator c
Matrix c
ObservableProperty c
Observation c
ObservationGroup c
has range
string

startDatedp back to ToC or Data Property ToC

IRI: http://schema.org/startDate

has domain
ObservationGroup c
has range
date

wasAttributedTodp back to ToC or Data Property ToC

IRI: http://www.w3.org/ns/prov#wasAttributedTo

ORCID of the person who suggested this entity, recorded as the provenance attribution (prov:wasAttributedTo) of the resulting nanopublication.

has domain
BioChemEntity c
Indicator c
Matrix c
has range
any U R I

Legend back to ToC

c: Classes
op: Object Properties
dp: Data Properties

References back to ToC

Add your references here. It is recommended to have them as a list.

Acknowledgments back to ToC

The authors would like to thank Silvio Peroni for developing LODE, a Live OWL Documentation Environment, which is used for representing the Cross Referencing Section of this document and Daniel Garijo for developing Widoco, the program used to create the template used in this documentation.