WIP Table Check Completeness LexEVS 5.0 Loader Mapping Guide

1.0

Scott Bauer, Craig Stancl

Initial Draft for LexEVS v5.0

1.1

Nov 29, 2009

Marylyn King (NCI)

Updated related documents note regarding LexEVS v5.1

LexEVS 5.x Loader Guide

New document for 5.1 that contains all loader-related information from several 5.0 documents plus the new the Loader Framework extension information and RRF enhancements in 5.1.

owl:ontology

codingScheme

–

xml:lang

codingScheme.defaultLanguage

Default is 'en'

dc:title

codingScheme.formalName

–

rdfs:label

codingScheme.localName

–

URI

codingScheme.registeredName

–

owl:versionInfo

codingScheme.representsVersion

Default is 'UNASSIGNED'

dc:rights

codingScheme.copyright

–

owl:Class (Thing, Nothing)

concept

–

rdf:ID

concept.conceptCode

–

–

concept.isActive

Hard coded as "Active"

–

concept.isAnonymous

–

rsfs:label

concept.entityDescription

–

rdf:comment

concept.comment

–

rdfs:subClassOf

association

–

–

association.id = "subClassOf"

–

–

association.forwardName = "subClassOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="true"

–

rdf:Property (ObjectProperty)

association

An association between two classes (hasDomain, hasRange)

rdf:Property (DatatypeProperty)

association
concept.conceptProperty

An association between one class (domain) and one asscoication (hasDomain and hasDataProperty). The conceptProperty defines the range.

rdfs:subPropertyOf

association

–

–

association.id = "subPropertyOf"

–

–

association.forwardName = "subPropertyOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="true"

–

rdfs:domain

association

–

–

association.id = "hasDomain"

–

–

association.forwardName = "hasDomain"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="true"

–

rdfs:range

association

–

–

association.id = "hasRange"

–

–

association.forwardName = "hasRange"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="false"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="false"

–

Individual

association

A 'hasInstance' association is created. (ie. sourceId = Country, targetId = America)

–

association.id = "hasInstance"

–

owl:equivalentClass

association

–

–

association.id = "equivalentClass"

–

–

association.forwardName = "equivalentClass"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="equivalentClass"

–

owl:equivalentProperty

association

–

–

association.id = "equivalentProperty"

–

–

association.forwardName = "equivalentProperty"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="equivalentProperty"

–

owl:sameAs

association

–

–

association.id = "sameAs"

–

–

association.forwardName = "sameAs"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="sameAs"

–

differentFrom

association

–

–

association.id = "differentFrom"

–

–

association.forwardName = "differentFrom"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName= "differentFrom"

–

owl:AllDifferent

association

–

–

association.id = "AllDifferent"

–

–

association.forwardName = "AllDifferent"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName= "AllDifferent"

–

owl:inverseOf

association

–

–

association.id = "inverseOf"

–

–

association.forwardName = "inverseOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="inverseOf"

–

owl:TransitiveProperty

association.isTransitive

association property 'isTransitive'

owl:SymmetricProperty

association.isSymmetric

association property 'isSymmetric'

owl:InverseFunctionalProperty

association.isReverseFunctional

association property 'isReverseFunctional'

owl:FunctionalProperty

association.isFunctional

association property 'isFunctional'

owl:Restriction

concept

Create an anonymous concept for the restriction

–

concept.id

System generated

–

concept.isActive = true

–

concept.isAnonymous = true

Hardcoded "True"

owl:onProperty

association.id

–

owl: allValuesFrom

concept.entityDescription

String of allValuesFrom values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of allValuesFrom values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:unionOf"

owl: someValuesFrom

concept.entityDescription

String of someValuesFrom values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of someValuesFrom values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

owl:intersectionOf

concept.entityDescription

String of intersectionOf values (ie. Pizza and not VegetarianPizza)

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of intersectionOf values (ie. Pizza and not VegetarianPizza)

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

UnionOf

concept.conceptProperty.text = "owl:unionOf"

–

owl:complementOf

association

association.id = "subClassOf"

owl:oneOf

concept.entityDescription

String of oneOf values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of oneOf values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:hasValue

associationQualification.nameAndValueList.content

–

owl:minCardinality

concept.entityDescription

String of minCardinality Values (ie. (hasTopping min 3) and Pizza)

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of minCardinality Value (ie. (hasTopping min 3) and Pizza)

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:maxCardinality

concept.entityDescription

String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

owl:cardinality

concept.entityDescription

String of cardinality Values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of cardinality Values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:disjointWith

association

association.id = "disjointWith"

rdfs:label

Presentation

–

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName = "textualPresentation"

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

Value of rdfs:label

rdfs:comment

Comment

–

concept.comment.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.comment.propertyName = "comment"

Hardcoded "comment"

–

concept.presentation.text

Value of rdfs:comment

rdfs:seeAlso

conceptProperty

–

rdfs:isDefinedBy

conceptProperty

–

owl:versionInfo

codingScheme.representsVersion

–

priorVersion

Not Mapped

–

backwardCompatibleWith

Not Mapped

–

owl:incompatibleWith

association

–

–

association.id = "incompatibleWith"

–

–

association.forwardName = "incompatibleWith"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="incompatibleWith"

–

DeprecatedClass

Concept attribute setIsActive = false

Not Mapped

DeprecatedProperty

Not Mapped

owl:ontology

codingScheme

–

xml:lang

codingScheme.defaultLanguage

Default is 'en'

dc:title

codingScheme.formalName

–

rdfs:label

codingScheme.localName

–

URI

codingScheme.registeredName

–

owl:versionInfo

codingScheme.representsVersion

Default is 'UNASSIGNED'

dc:rights

codingScheme.copyright

–

owl:Class (Thing, Nothing)

concept

–

rdf:ID

concept.conceptCode

–

–

concept.isActive

Hard coded as "Active"

–

concept.isAnonymous

–

–

concept.isDefined

–

rsfs:label

concept.entityDescription

–

rdf:comment

concept.comment

–

rdfs:subClassOf

association

–

–

association.id = "subClassOf"

–

–

association.forwardName = "subClassOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="true"

–

rdf:Property (ObjectProperty)

association

An association between two classes (domain, range)

rdf:Property (DatatypeProperty)

association
concept.conceptProperty

An association between one class (domain) and one asscoication (domain and hasDataProperty). The conceptProperty defines the range.

rdfs:subPropertyOf

association

–

association.id = "subPropertyOf"

–

–

association.forwardName = "subPropertyOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="true"

–

rdfs:domain

association

–

–

association.id = "domain"

–

–

association.forwardName = "domain"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="false"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="true"

–

rdfs:range

association

–

–

association.id = "range"

–

–

association.forwardName = "range"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="false"

–

–

association.isSymmetric="false"

–

–

association.isTransitive="false"

–

Individual

association

An 'instance' association is created. (ie. sourceId = Country, targetId = America)

–

association.id = "instance"

–

owl:equivalentClass

association

–

–

association.id = "equivalentClass"

–

–

association.forwardName = "equivalentClass"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="equivalentClass"

–

owl:equivalentProperty

association

–

–

association.id = "equivalentProperty"

–

–

association.forwardName = "equivalentProperty"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="equivalentProperty"

–

owl:sameAs

association

–

–

association.id = "sameAs"

–

–

association.forwardName = "sameAs"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="sameAs"

–

differentFrom

association

–

–

association.id = "differentFrom"

–

–

association.forwardName = "differentFrom"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName= "differentFrom"

–

owl:AllDifferent

association

–

–

association.id = "AllDifferent"

–

–

association.forwardName = "AllDifferent"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName= "AllDifferent"

–

owl:inverseOf

association

–

association.id = "inverseOf"

–

–

association.forwardName = "inverseOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="inverseOf"

–

owl:TransitiveProperty

association.isTransitive

association property 'isTransitive'

owl:SymmetricProperty

association.isSymmetric

association property 'isSymmetric'

owl:InverseFunctionalProperty

association.isReverseFunctional

association property 'isReverseFunctional'

owl:FunctionalProperty

association.isFunctional

association property 'isFunctional'

owl:Restriction

concept

Create an anonymous concept for the restriction

–

concept.id

System generated

–

–

concept.isActive = true

–

–

concept.isAnonymous = true

Hardcoded "True"

owl:onProperty

association.id

–

owl: allValuesFrom

concept.entityDescription

String of allValuesFrom values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of allValuesFrom values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:unionOf"

–

owl: someValuesFrom

concept.entityDescription

String of someValuesFrom values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of someValuesFrom values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:intersectionOf

concept.entityDescription

String of intersectionOf values (ie. Pizza and not VegetarianPizza)

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of intersectionOf values (ie. Pizza and not VegetarianPizza)

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

UnionOf

concept.conceptProperty.text = "owl:unionOf"

–

owl:complementOf

association

association.id = "subClassOf"

owl:oneOf

concept.entityDescription

String of oneOf values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of oneOf values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:hasValue

associationQualification.nameAndValueList.content

–

owl:minCardinality

concept.entityDescription

String of minCardinality Values (ie. (hasTopping min 3) and Pizza)

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of minCardinality Value (ie. (hasTopping min 3) and Pizza)

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:maxCardinality

concept.entityDescription

String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:cardinality

concept.entityDescription

String of cardinality Values

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

String of cardinality Values

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:disjointWith

association

association.id = "disjointWith"

rdfs:label

Presentation

–

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName = "textualPresentation"

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

Value of rdfs:label

rdfs:comment

Comment

–

–

concept.comment.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.comment.propertyName = "comment"

Hardcoded "comment"

–

concept.presentation.text

Value of rdfs:comment

rdfs:seeAlso

conceptProperty

–

rdfs:isDefinedBy

conceptProperty

–

owl:versionInfo

codingScheme.representsVersion

–

priorVersion

Not Mapped

–

backwardCompatibleWith

Not Mapped

–

owl:incompatibleWith

association

–

–

association.id = "incompatibleWith"

–

–

association.forwardName = "incompatibleWith"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="incompatibleWith"

–

DeprecatedClass

Concept attribute setIsActive = false

Not Mapped

DeprecatedProperty

–

Not Mapped

owl:ontology

codingScheme

Hardcoded "NCI_Thesaurus"

xml:lang

codingScheme.defaultLanguage

Hardcoded "en"

dc:title

codingScheme.formalName

Hardcoded "NCI Thesaurus"

rdfs:label

codingScheme.localName

Hardcoded "NCI_Thesaurus"

–

Hardcoded "40010"

–

Hardcoded "urn:oid:2.16.840.1.113883.3.26.1.1"

–

URI

codingScheme.registeredName

Hardcoded "http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#"

owl:versionInfo

codingScheme.representsVersion

–

dc:rights

codingScheme.copyright

Read from hardcoded "Terms.txt" file .

rdfs:comment

codingScheme.entityDescription

–

–

codingScheme.isNative

Hardcoded "true"

owl:Class (Thing, Nothing)

concept

–

code

concept.id

–

–

concept.isActive

Hard coded as "true" unless class "owl:DeprecatedClass", then 'false'

–

concept.isAnonymous

–

rsfs:label

concept.entityDescription

–

rdf:comment

concept.comment

–

–

conceptProperty

Indicate whether the concept is primative (has no equavalent classes)

–

concept.conceptProperty.propertyName

Hard coded as "primitive"

–

concept.conceptProperty.text

"true"

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

presentation

Provide default presentation to match concept entity description if not provided as property

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "NCI_Preferred_Term"

rdfs:label

concept.presentation.text

concept.entityDescription

–

conceptProperty

Property with designated concept name label (per NCI requirements and used in codeToName/nameToCode lookup).

–

concept.conceptProperty.propertyName

Hard coded as "CONCEPT_NAME"

rdfs:label

concept.conceptProperty.text

concept.entityDescription

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

relation

Top-level container for associations (non-inheritable, non-defining relationships between concepts.

–

relations.dc

Hard coded as "associations"

–

relations.isNative

Hard coded as "true"

–

relations.entityDescription

Hard coded as "Non-inheritable non-defining relations."

–

relation

Top-level container for roles (inheritable relationships)

–

relations.dc

Hard coded as "roles"

–

relations.isNative

Hard coded as "true"

–

relations.entityDescription

Hard coded as "Inheritable/defining relations."

rdfs:subClassOf

association

Association for subtype hierarchy.

–

association.id = "hasSubtype"

–

–

association.forwardName = "hasSubtype"

–

–

association.reverseName = "isA"

–

–

association.isNavigable = "true"

Hard coded as "true"

–

Hard coded as "true"

–

–

Hard coded as "false"

–

–

Hard coded as "true"

–

hasElement

association

Association used to register component classes as elements of anonymous node representations.

–

association.id = "hasElement"

–

–

association.forwardName = "hasElement"

–

–

association.isNavigable = "true"

Hard coded as "true"

–

Hard coded as "false"

–

–

Hard coded as "true"

–

rdfs:domain

association

Association for role_has_domain relations

–

association.id = "Role_Has_Domain"

–

–

association.forwardName = "roleHasDomain"

–

–

association.reverseName = "kindIsDomainOf"

–

–

association.isNavigable = "true"

Hard coded as "true"

–

Hard coded as "false"

–

–

Hard coded as "false"

–

–

Hard coded as "true"

–

rdfs:range

association

Association for range relations

–

association.id = "Role_Has_Range"

–

–

association.forwardName = "roleHasRange"

–

–

association.reverseName = "kindIsRangeOf"

–

–

association.isNavigable = "true"

Hard coded as "true"

–

association.isReflexive="false"

Hard coded as "false"

–

association.isSymmetric="false"

Hard coded as "false"

–

association.isTransitive="false"

Hard coded as "false"

rdf:Property (ObjectProperty)

association

An association between two classes (hasDomain, hasRange)

rdfs:subPropertyOf

Not Mapped

owl:equivalentClass

association

Association for equivalent class.

–

association.id = "equivalentClass"

–

–

association.forwardName = "equivalentClass"

–

–

association.reverseName = "equivalentClass"

–

–

association.isNavigable = "true"

Hard coded as "true"

–

–

association.isReflexive="true"

Hard coded as "true"

–

association.isSymmetric="true"

Hard coded as "true"

–

association.isTransitive="true"

Hard coded as "true"

owl:inverseOf

association

–

–

association.id = "inverseOf"

–

–

association.forwardName = "inverseOf"

–

–

association.isFunctional = "false"

–

–

association.isNavigable = "true"

–

–

association.isReflexive="true"

–

–

association.isSymmetric="true"

–

–

association.isTransitive="true"

–

–

association.reverseName="inverseOf"

–

owl:TransitiveProperty

association.isTransitive

association property 'isTransitive'

owl:SymmetricProperty

association.isSymmetric

association property 'isSymmetric'

owl:InverseFunctionalProperty

association.isReverseFunctional

association property 'isReverseFunctional'

owl:FunctionalProperty

association.isFunctional

association property 'isFunctional'

owl:Restriction

concept

Anonymous concept created.

–

concept.entityDescription = "RestrictionOn: " + association name

Concatination of "Restriction On: " and assocation name

–

concept.isAnonymous = true

–

owl: allValuesFrom

associationQualification.association.Qualifier = "AllValuesFrom"

–

owl: someValuesFrom

associationQualification.association.Qualifier = "someValuesFrom"

–

owl:intersectionOf

concept.entityDescription

Concatination of "Restriction On: " and assocation name

–

concept.isAnonymous = true

–

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

Set to concept.entityDescription

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:intersectionOf"

–

owl:unionOf

concept.entityDescription

Concatination of "Restriction On: " and assocation name

–

concept.isAnonymous = true

–

–

concept.presentation.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.presentation.propertyName

Hardcoded "textualPresentation"

–

concept.presentation.isPreferred = true

Hardcoded "true"

–

concept.presentation.text

Set to concept.entityDescription

–

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = type

Hardcoded "type"

–

concept.conceptProperty.text = "owl:unionOf"

–

owl:oneOf

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

–

concept.conceptProperty.propertyName = "owl:oneOf"

Hardcoded "owl:oneOf"

–

concept.conceptProperty.text

String of oneOf values

rdfs:comment

Comment

–

–

concept.comment.propertyId

Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.

–

concept.comment.propertyName = "comment"

Hardcoded "comment"

–

concept.presentation.text

Value of rdfs:comment

rdfs:seeAlso

conceptProperty

–

rdfs:isDefinedBy

conceptProperty

–

owl:versionInfo

codingScheme.representsVersion

–

priorVersion

–

Not Mapped

backwardCompatibleWith

–

Not Mapped

DeprecatedClass

–

Not Mapped

DeprecatedProperty

–

Not Mapped

tag

presentation

source

represenational form

qualifier

model element

value column name

model element

go-term

x

propertyValue

go-id

x

propertyQualifierId

val1

PropertyQualifier attribute content?

go-source

x

propertyQualifierId

val1

PropertyQualifier attribute content?

source-date

x

propertyQualifierId

val1

PropertyQualifier attribute content?

term-name

x

propertyValue

term-group

x

representationalForm

property attribute

term-source

x

attributeValue

source

def-source

x

attributeValue

source

def-definition

x

propertyValue

definition

Definition_Review_Date

x

propertyQualifierId

val1

PropertyQualifier attribute content?

Definition_Reviewer_Name

x

propertyQualifierId

val1

PropertyQualifier attribute content?

codingScheme.representsVersion

codingScheme.codingScheme

hard coded in java file as "UMLS_SemNet"

codingScheme.formalName

hard coded in java file as "UMLS Semantic Network"

codingScheme.defaultLanguage

hard coded in java file as "en"

codingScheme.approxNumConcepts

hard coded in java file as

codingScheme.entityDescription

hard coded in java file as "The UMLS Semantic Network is one of three UMLS Knowledge Sources developed as part of the Unified Medical Language System project. The network provides a consistent categorization of all concepts represented in the UMLS Metathesaurus."

license.txt

codingScheme.copyright

Read from license.txt file or hard coded reference in java file

codingScheme.registeredName

hard coded in java file as "urn:lsid:nlm.nih.gov:semnet"

codingScheme.concepts.dc

hard coded in java file as "concepts"

codingScheme.relations.dc

hard coded in java file as "relations"

codingScheme.mappings.dc

hard coded in java file as "mappings"

codingScheme.localNameList

codingScheme.localNameList.

hard coded in java file as "UMLS_SemNet"

codingScheme.localNameList

codingScheme.localNameList.

codingScheme.source

codingScheme.source.content

codingScheme.localNameList

codingScheme.localNameList.

codingScheme.localNameList

codingScheme.localNameList.

codingScheme.localNameList

codingScheme.localNameList.

codingScheme.localNameList

codingScheme.localNameList.

mappings.supportedFormat

mappings.supportedFormat.localId

hard coded in java file as "text/plain"

mappings.supportedFormat.urn

hard coded in java file as "urn:oid:2.16.840.1.113883.6.10:text_plain"

mappings.supportedAssociation

SRDEF

RL

mappings.supportedAssociation.localId

mappings.supportedContext

mappings.supportedSource

mappings.supportedSource.localId

hard coded in java file as "NLM"

mappings.supportedSource.urn

hard coded in java file as "urn:lsid:nlm.nih.gov"

mappings.supportedHierarchy

mappings.supportedHierarchy.localId

hard coded in java file as "is_a"

mappings.supportedHierarchy.isForwardNavigable

hard coded as "true"

mappings.supportedHierarchy.rootCode

hard coded as "@"

mappings.supportedHierarchy.associationList

hard coded in java file as "hasSubtype"

mappings.supportedAssociationQualifier

SRFLD

COL

mappings.supportedProperty

mappings.supportedProperty.localId

If SRDEF appears in the FIL column then this is treated a potential supported property and is entered in supported properties as such.

mappings.supportedProperty.urn

hard coded in java file as ""

mappings.supportedLanguage

mappings.supportedLanguage.localId

hard coded in java file as "en"

mappings.supportedLanguage.urn

hard coded in java file as "urn:oid:2.16.840.1.113883.6.84:en"

mappings.supportedCodingScheme

mappings.supportedCodingScheme.localId

hard coded in java file as "UMLS_SemNet"

mappings.supportedCodingScheme.urn

hard coded in java file as "urn:lsid:nlm.nih.gov:semnet"

mappings.supportedRepresentationalForm

mappings.supportedConceptStatus

mappings.supportedPropertyLink

mappings.supportedPropertyQualifier

mappings.supportedDataType

SRDEF

UI

concept.id(inherited from Entity)

SRDEF

STY/RL

concept.enitityDescription(inheritance path Entity->versionableAndDescribable)

concept.conceptProperty

SRDEF

NH

concept.conceptProperty.text.content

concept.conceptProperty.format

hard coded in java file as "text/plain"

concept.conceptProperty.propertyName

hard coded in java file as "NH"

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

concept.presentation

concept.presentation.propertyName (inherited from Property)

Hard coded in java file as "STY/RL" or "ABR"

concept.presentation.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

SRDEF

STY/RL, ABR

concept.presentation.text.content

concept.presentation.format

hard coded in java file as "text/plain"

concept.presentation.isPreferred

hard coded in java file as true.

concept.definition.propertyName (inherited from Property)

Hard coded in java file as "DEF"

concept.definition.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

SRDEF

DEF

concept.definition.text.content

concept.definition.format

hard coded in java file as "text/plain"

concept.definition.isPreferred

hard coded in java file as true.

concept.comment

SRDEF

EX

concept.comment.propertyName (inherited from Property)

Hard coded in java file as "EX"

concept.comment.text.content

concept.comment.format

hard coded in java file as "text/plain"

concept.comment.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

concept.instruction

concept.instruction.propertyName (inherited from Property)

Hard coded in java file as "UN"

SRDEF

UN

concept.instruction.text.content

concept.instruction.format

hard coded in java file as "text/plain"

concept.instruction.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

SRSTR

RL

association.id (inherited from Entity)

In the case of RL value is "isa" the id is hard coded to hasSubtype. The direction of the association is also reversed

association.isTransitive

hard coded to true if the value of RL is "isa"

SRSTR

RL

association.forwardName

Reversed when value of RL is "isa"

SRSTR

STY/RL

associationInstance.sourceId

Reversed when value of RL is "isa"

SRSTR

STY/RL

associationTarget.targetId

SRDEF

RIN

association.reverseName

SRDEF

DEF

association.entityDescription.content (inheritance path for entityDescription is Entity->versionableAndDescribable)

When SRDEF value RT is "RL"

SRSTRE1

UI/STY(first argument)

associationInstance.sourceId

Reversed when value of RL is "isa"

SRSTRE1

UI/STY(2nd argument)

associationTarget.targetId

Reversed when value of RL is "isa"

MRSAB.RRF

SVER

Release date or version number of a source

codingScheme.representsVersion

MRSAB.RRF

SSN

Source short name

codingScheme.codingScheme

MRSAB.RRF

SON

Source Official Name

codingScheme.formalName

MRSAB.RRF

LAT

Language of Term(s)

codingScheme.defaultLanguage

MRSAB.RRF

TRF

Term frequency for a source

codingScheme.approxNumConcepts

MRSAB.RRF

SCIT

Source citation

codingScheme.entityDescription

inherits entityDescription from versionableAndDescribable

MRSAB.RRF

SCC

Content contact info for a source

codingScheme.copyright

codingScheme.registeredName

Pulled from iso mapping configuration file using method getISOString(RSAB from MRSAB.RRF)

MRDOC.RRF

EXPL

Detailed explanation

x

codingScheme.representsVersion

Where Dockey = "RELEASE" and value = "umls.release.name"

x

codingScheme.codingScheme

Hard coded in java file as "NCI MetaThesaurus"

x

codingScheme.formalName

Hard coded in java file as "NCI MetaThesaurus"

x

codingScheme.defaultLanguage

Hard coded in java file as "ENG"

MRCONSO.RRF

x

codingScheme.approxNumConcepts

Count of CODE value in MRCONSO.RRF

x

codingScheme.entityDescription

Hard coded in java file as "NCI MetaThesaurus loaded from RRF files."

x

codingScheme.copyright

Hard coded in java file as "Some material in the NCI Metathesaurus is from copyrighted sources of the respective copyright claimants. All sources appearing in the NCI Metathesaurus are licensed or authorized for NCI use. Users of the NCI Metathesaurus are responsible for compliance with the terms of these licenses and with any copyright restrictions and are referred to NCI Center of Bioinformatics for license terms and to the copyright notices appearing in the original sources, all of which are obtainable online by reference at

http://ncimeta.nci.nih.gov/

."

codingScheme.localNameList

Hard coded as constant in java file as "localName"

MRSAB.RRF

SON

Source Official Name

codingScheme.localNameList.

codingScheme.localNameList

Hard coded as constant in java file as "localName"

codingScheme.localNameList.

Pulled from iso mapping configuration file using method getISOString(RSAB from MRSAB.RRF)

codingScheme.source

Hard coded as constant in java file as "source"

MRDOC.RRF

EXPL

Detailed explanation

codingScheme.source.content

String concatenation of "UMLS-" and value of EXPL

x

codingScheme.localNameList

Hard coded as constant in java file as "localName"

x

codingScheme.localNameList.

Hard coded in java file as "NCI Thesaurus"

x

codingScheme.localNameList

Hard coded as constant in java file as "localName"

x

codingScheme.localNameList.

Hard coded in java file as "NCI_Thesaurus"

x

codingScheme.localNameList

Hard coded as constant in java file as "localName"

x

codingScheme.localNameList.

Hard coded in java file as "10001"

x

codingScheme.localNameList

Hard coded as constant in java file as "source"

x

codingScheme.localNameList.

Hard coded in java file as "RRF Files"

mappings.supportedFormat

Hard coded as constant in java file as "Format"

mappings.supportedFormat.localId

Hard coded as one of several constants in a java file

mappings.supportedAssociation

Hard coded as constant in java file as "Association"

MRREL.RRF

REL, RELA

Relationship, Relationship attribute

mappings.supportedAssociation.localId

mappings.supportedContext

Hard coded as constant in java file as "Context" May not be used in individual RRF load

mappings.supportedSource

Hard coded as constant in java file as "Source" May not be used in individual RRF load

mappings.supportedHierarchy

Hard coded as constant in java file as "Hierarchy"

mappings.supportedAssociationQualifier

Hard coded as constant in java file as "AssociationQualifier"

mappings.supportedProperty

Hard coded as constant in java file as "Property"

mappings.supportedLanguage

Hard coded as constant in java file as "Language"

mappings.supportedCodingScheme

Hard coded as constant in java file as "CodingScheme"

mappings.supportedRepresentationalForm

Hard coded as constant in java file as "RepresentationalForm"

mappings.supportedConceptStatus

Hard coded as constant in java file as "ConceptStatus"

mappings.supportedPropertyLink

Hard coded as constant in java file as "PropertyLink"

mappings.supportedPropertyQualifier

Hard coded as constant in java file as "PropertyQualifier"

mappings.supportedDataType

Hard coded as constant in java file as "DataType"

MRCONSO.RRF

CODE

Unique Identifier or code for string in source

concept.conceptCode

MRCONSO.RRF

CUI

Unique identifier for concept

x

concept.conceptCode

concept.isActive

Hardcoded in parameter as true.

concept.conceptStatus

Hard coded as constant in java file as "Active"

concept.isAnonymous

Hardcoded in parameter as false.

MRCONSO.RRF

STR

String

concept.entityDescription

concept.conceptProperty.Format

Hard coded as constant in java file as "text/plain" or null

concept.conceptProperty.propertyName

May be hard coded as constant in java file as one of several properties.

concept.conceptProperty.usageContext

concept.conceptProperty.propertyId

Generated value for property using "P" concatenated with a steadily incremented numerical value.

concept.presentation.propertyId

Generated value for property textual presentation using "T" concatenated with a steadily incremented numerical value.

concept.comment.propertyId

Generated value for property comment using "C" concatenated with a steadily incremented numerical value.

concept.definition.propertyId

Generated value for property definition using "D" concatenated with a steadily incremented numerical value.

concept.instruction.propertyId

Generated value for property instruction using "I" concatenated with a steadily incremented numerical value.

MRCONSO.RRF

CUI

Unique identifier for concept

concept.conceptProperty.text.content.

concept.conceptProperty.propertyId

Generated value for property using "CUI" concatenated with a steadily incremented numerical value.

concept.conceptProperty.propertyName

hard coded as constant in java file as "UMLS_CUI"

concept.conceptProperty.propertyType

hard coded as constant in java file as "property"

concept.conceptProperty.format

left as null

MRSTY.RRF

STY

Semantic type

concept.conceptProperty.text.content

concept.conceptProperty.propertyId

Generated value for property using "SemType" concatenated with a steadily incremented numerical value.

concept.conceptProperty.propertyName

hard coded as constant in java file as "Semantic_Type"

concept.conceptProperty.propertyType

hard coded as constant in java file as "property"

concept.conceptProperty.format

Hard coded as constant in java file as "text/plain"

MRCONSO.RRF

LAT

Language of Term(s)

concept.conceptProperty.language

Logic of code simply selects the first definition in the source as the preferred source

MRCONSO.RRF

TS

Term status

concept.presentation.isPreferred

One or a combination of these RRF values determines whether a presentation is preferred: LAT, TS, STT, ISPREF, RANK.

MRCONSO.RRF

STT

String type

concept.presentation.isPreferred

One or a combination of these RRF values determines whether a presentation is preferred: LAT, TS, STT, ISPREF, RANK.

MRCONSO.RRF

ISPREF

Indicates whether AUI is preferred

concept.presentation.isPreferred

One or a combination of these RRF values determines whether a presentation is preferred: LAT, TS, STT, ISPREF, RANK.

MRRANK.RRF

RANK

Termgroup ranking

concept.presentation.isPreferred

One or a combination of these RRF values determines whether a presentation is preferred: LAT, TS, STT, ISPREF, RANK.

concept.presentation.isPreferred

MRDEF.RRF

DEF

Definition

concept.definition.text.content

concept.definition.isPreferred

Logic of code simply selects the first definition in the source as the preferred source

MRSAT.RRF

ATN

Attribute name

concept.conceptProperty.propertyType

Translated to a LexGrid property type. For values AN, CX, HN this property is typed as a "COMMENT" in LexGrid. For value EV this property is typed "PRESENTATION" This only occurs when the STYPE points to the CODE, SCUI or SDUI columns in MRREL.RRF or MRCONSO.RRF. If the STYPE points to SAUI then the values are loaded as property qualifiers.

MRSAT.RRF

ATV

Attribute value

concept.conceptProperty.propertyValue

MRSAT.RRF

ATN

Attribute name

concept.conceptProperty.propertyQualifier.propertyQualifierId

If the STYPE points to SAUI then the value is loaded as a property qualifier attribute

MRSAT.RRF

ATV

Attribute value

concept.conceptProperty.propertyQualifier.content

If the STYPE points to SAUI then the value is loaded as a property qualifier attribute

MRCONSO.RRF

SAB

x

concept.conceptProperty.source.content

x

concept.conceptProperty.propertyQualifier.propertyQualifierId

hard coded as constant in java file as "source-code"

MRCONSO.RRF

CODE

x

concept.conceptProperty.propertyQualifier.content

x

concept.conceptProperty.propertyQualifier.propertyQualifierId

hard coded as constant in java file as "AUI"

MRCONSO.RRF

AUI

x

concept.conceptProperty.propertyQualifier.content

concept.presentation.representationalForm

When ATN value is EV this presentation will be given a representationalForm of "Abbrev."

MRCONSO.RRF

TTY

Term type in source

concept.presentation.representationForm

When TTY value is FN then representationalForm is represented as "Full Form" Otherwise the representationalForm is the same as the TTY source (i.e. if TTY is PT then representationalForm is PT.) PT is one of the preferred presentations.

concept.conceptProperty.propertyQualifier.propertyQualifierId

hard coded as "HCD"

MRHIER.RRF

HCD

Source asserted hierarchical number or code for this atom in this context

concept.conceptProperty.propertyQualifier.content

This propertyQualifier is present when the HCD is populated in the the MRHIER file. The corresponding code and property for concept or code is qualified as a code or concept with a context derived heirarchy.

MRREL.RRF

CUI1

Unique identifier for first concept

MRREL.RRF

AUI1

Unique identifier for first atom

MRCONSO.RRF

CODE

Unique Identifier or code for string in source

ConceptReference.conceptCode

(Model element is a ResolvedConceptReference with the value sourceOf attached to the appropriate AssociationList containing this particular REL or RELA association name.) Mapping to the CODE depends upon the CUI or a combination of CUI and AUI values. If the CODE value is "NOCODE" then LexBIG concatenates "NOCODE" with a "-" and the CUI value. Target or source code value requires use of the DIR flag which indicates the directionality of the relationship in REL or RELA. CUI1 can be used as a pointer to the source CODE value if DIR equals Y, else CUI1 is the targetCode. Similarly, if an AUI exists AUI1 can be an indicator for CODE value to be either or source or target depending on the DIR flag.

MRREL.RRF

CUI2

Unique identifier for second concept

MRREL.RRF

AUI2

Unique identifier for second atom

MRCONSO.RRF

CODE

Unique Identifier or code for string in source

ConceptReference.conceptCode

(Model element is a ResolvedConceptReference with the value targetOf attached to the appropriate AssociationList containing this particular REL or RELA association name.) Mapping to the CODE depends upon the CUI or a combination of CUI and AUI values. If the CODE value is "NOCODE" then LexBIG concatenates "NOCODE" with a "-" and the CUI value. Target or source code value requires use of the DIR flag which indicates the directionality of the relationship in REL or RELA. CUI2 can be used as a pointer to the source CODE value if DIR equals Y, else CUI1 is the targetCode. Similarly, if an AUI exists AUI2 can be an indicator for CODE value to be either or source or target depending on the DIR flag.

MRREL.RRF

DIR

Source asserted directionality flag

The UMLS directional flag. Y indicates that this is the direction of the RELA relationship in its source; N indicates that it is not; otherwise indicates that it is not important or has not yet been determined. (If blank RELA, we interpret as 'N', based on empirical review of meta files).

MRREL.RRF

RELA

Relationship attribute

association.id (id inherited from Entity)

Source defined associations. If RELA value is "inverse_isa" then it is changed to "hasSubtype." All others mapped as defined in source.

MRREL.RRF

REL

Relationship

association.id (id inherited from Entity)

UMLS defined associations

MRSAT.RRF

METAUI

Metathesaurus asserted unique identifier

Presence of RUI in MRSAT.RRF METAUI column indicates the association defined in MRREL has an association qualifier. Currently only MedDRA uses these.

MRSAT.RRF

ATN

AssociatedConcept.nameAndValueList.name

MRSAT.RRF

ATV

AssociationQualification.nameAndValueList.content

AssociatedConcept.nameAndValueList.name

qualifier name is hard coded to "HCD" This association qualifier is attached to an association when the HCD field in MRHIER.RRF is populated. Associations are identified by evaluating a structured series of AUI's that describe the path to root (PTR field in MRHIER) Once these associations are identified they have and association qualifier attached to them with the value of the HCD loaded as the qualifier.

MRHIER.RRF

HCD

AssociationQualification.nameAndValueList.content

MRSAB.RRF

SSN

Source short name

association.codingSchemeId (Inherited from Entity)

MRREL.RR

REL or RELA

Relationship or Relationship attribute

association.forwardName

unqualified REL or RELA value (inverse_isa remains the same)

MRDOC.RRF

EXPL

Detailed explanation

association.reverseName

Where DOCKEY in MRDOC equals REL or RELA and value is the association name and TYPE is REL or RELA name prepended to "_inverse".

association.inverse

Hard coded as a blank string.

association.isAntiReflexive

hard coded to null.

association.isAntiSymmetric

hard coded to null.

association.isAntiTransitive

hard coded to null.

association.isAntiTransitive

hard coded to null.

association.isNavigable

hard coded as Boolean with value true.

association.isReflexive

hard coded to null.

association.isReverseFunctional

hard coded to null.

association.isSymmetric

hard coded to null.

MRREL.RRF

SAB, REL, RELA

Source abbreviation

association.isTransitive

True when the name of the association can be mapped to a source defined in the SAB attribute of MRREL.RRF. Not the SAB value itself, but extrapolated from it using SAB to REL, RELA relationship.

association.isTranslationAssociation

hard coded to null.

association.targetCodingScheme

hard coded to null.

association.entityDescription.content (inheritance path for entityDescription is Entity->versionableAndDescribable)

Hard coded to: "UMLS-defined relationships"

relations.dc

If REL, this is hard coded as "UMLS-Relations" if RELA then it is hard coded to "Relations"

MRREL.RRF

REL, RELA

x

propertyLink.link

This is a link established when the MRREL.RRF file contains a relationship where the CUI is related to itself. Under these conditions the relationship is mapped as a property link with the MRREL defined relationship mapped as the link value.

x

propertyLink.sourceProperty

Generated as a propertyId for concept, ex: "T-10" This is retrieved based on the AUI value in MRCONSO.RRF from the entityPropertyMultiAttrib table where the AUI equals the attributeValue column.

x

propertyLink.targetProperty

Generated as a propertyId for concept, ex: "T-10" This is retrieved based on the AUI value in MRCONSO.RRF from the entityPropertyMultiAttrib table where the AUI equals the attributeValue column.

RSAB.RRF

SVER

Release date or version number of a source

codingScheme.representsVersion

RSAB.RRF

SSN

Source short name

codingScheme.codingScheme?

RSAB.RRF

SON

Source Official Name

codingScheme.formalName

codingScheme.defaultLanguage

Hard coded to "en"

MRSAT.RRF

ATV

concept.presentation.language

Unique to snomed.

Document Header

format-version

Not mapped.

Document Header

data-version

CodingScheme.representsVersion

Creates a codingSchemeVersion and SystemRelease record. If not specified, then hard coded "UNASSIGNED"

Document Header

version

CodingScheme.representsVersion

Deprecated - use data-version if present.

Document Header

date

Not mapped.

Document Header

saved-by

Ignored but included if contained in the remark entity.

Document Header

auto-generated-by

Ignored but included if contained in the remark entity.

Document Header

subsetdef

Not mapped.

Document Header

import

Deprecated - Imports are used to assemble a larger document from smaller.

Document Header

typeref

Deprecated.

Document Header

synonymtypedef

Not mapped.

Document Header

idspace

Not mapped.The idspace is a triple - localName, URN and description.

Document Header

default-relationship-id-prefix

Not mapped.

Document Header

id-mapping

CodingScheme.supportedAssociation

This is more generalized than the LexGrid model, as it supports mapping between any id's. Note that its primary purpose, however, is to handle supportedAssociation.

Document Header

remark

CodingScheme.entityDescription

Will combine multiple remark entities into the entityDescription.

Document Header

default-namespace

codingScheme.codingScheme

Will use default-namespace if provided; otherwise will use filename without the extension.

Document Header

default-namespace

codingScheme.formalName

Will use default-namespace if provided; otherwise will use filename without the extension.

Document Header

default-namespace

codingScheme.registeredName

Combination of "urn:lsid:bioontology.org:" and if provided, the value in "default-namespace"; but if not will use filename without the extension.

codingScheme.defaultLanguage

Hardcoded "en"

codingScheme.isNative

Hardcoded "true"

Stanza

id

CodedEntry.conceptCode

Stanza

name

CodedEntry.entityDescription

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="fea181e4-bad8-4af8-a2ea-e1427b1f2924"><ac:plain-text-body><![CDATA[

CodedEntry.presentation['textualPresentation'].text

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="4a237241-1286-49ba-a8f6-4c84f9322baf"><ac:plain-text-body><![CDATA[

CodedEntry.presentation['textualPresentation'].isPreferred = true

]]></ac:plain-text-body></ac:structured-macro>

Stanza

alt_id

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3bd986e7-8cf7-4f19-947f-1480144f4884"><ac:plain-text-body><![CDATA[

CodedEntry.property['alt_id'].propertyId

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="4a9cf6d2-739f-41fc-ae49-2c4912819331"><ac:plain-text-body><![CDATA[

CodedEntry.property['alt_id'].text

]]></ac:plain-text-body></ac:structured-macro>

Stanza

is_anonymous

CodedEntry.isAnonymous = true

Stanza

is_obsolete

CodedEntry.isActive = false

Stanza

def

CodedEntry.definition

CodedEntry.definition.isPreferred = true

Stanza

def.dbxref

See dbxref

Stanza

comment

CodedEntry.comment.text

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="78befd1a-22c7-4635-a619-2dba0adb993c"><ac:plain-text-body><![CDATA[

Stanza

subset

property[subset tag]

See subsetdef

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="f3abc337-9475-4733-9260-601396d0f68c"><ac:plain-text-body><![CDATA[

Stanza

synonym

presentation['textualPresentation'].text

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="ae1b8652-d89c-476b-88e9-3c28933bf3b4"><ac:plain-text-body><![CDATA[

Stanza

synonym.scope

presentation['textualPresentation'].degreeOfFidelity

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="30fe2089-75b5-4440-8dc4-3bbb5e0829e1"><ac:plain-text-body><![CDATA[

Stanza

synonym.type

presentation['textualPresentation'].representationalForm

]]></ac:plain-text-body></ac:structured-macro>

Stanza

synonym.dbxref

(see dbxref)

Stanza

exact_synonym

See synonym

Stanza

narrow_synonym

See synonym

Stanza

broad_synonym

See synonym

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="02c0d8b1-2797-4751-9692-eefc07548fd9"><ac:plain-text-body><![CDATA[

Stanza

xref

associations.['mapsTo']

]]></ac:plain-text-body></ac:structured-macro>

Stanza

xref_analog

See synonym

Stanza

xref_unk

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="d3709200-5646-403a-8bae-4ea747be192a"><ac:plain-text-body><![CDATA[

Stanza

is_a

associations.['hasSubtype']

Reverse of the source and target.

]]></ac:plain-text-body></ac:structured-macro>

Stanza

is_a.namespace

If present, the supplied namespace becomes the owning "codingScheme".

Stanza

is_a.derived

associations.hasSubtype.associationQualifier

If present, need to include derived in the supportedAssociationQualifiers section

Stanza

intersection_of

Processed the same way that OWL intersection operator is processed. This includes creation of anonymous sets.

Stanza

union_of

Same as OWL

Stanza

disjoint_from

Same as OWL

Stanza

relationship

associations.

Stanza

relationship.not_necessary

associations..associationQualifier

Stanza

relationship.inverse_necessary

associations..associationQualifier

Stanza

relationship.namespace

If present, the supplied namespace becomes the owning "codingScheme".

Stanza

relationship.derived

associations..associationQualifier

Stanza

relationship.cardinality

associations..associationQualifier

Stanza

relationship.maxCardinality

associations..associationQualifier

Stanza

relationship.minCardinality

associations..associationQualifier

Stanza

is_obsolete

codedEntry.isActive = false

Stanza

replaced_by

Stanza

consider

Not Mapped

Stanza

use_term

(deprecated)

dbxref

dbxref name

CodedEntry..source

supportedSource

dbxref name format is inconsistent. In most cases, it can be the localName of supportedSource, but special processing may be necessary in the case of URL's, etc

dbxref

dbxref description

Not mapped.

dbxref

trailing modifiers

Not mapped.

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="a658bad4-127a-4423-91ab-6634490dda3f"><ac:plain-text-body><![CDATA[

typeDef Stanza

domain

associations.['has_domain']

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="45562232-6140-4a76-8dd4-7cad51d73362"><ac:plain-text-body><![CDATA[

typeDef Stanza

range

associations.['has_range']

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="5a862be5-2565-48d2-8b59-6e39f9cd43b2"><ac:plain-text-body><![CDATA[

typeDef Stanza

is_cyclic

property['is_cyclic']

]]></ac:plain-text-body></ac:structured-macro>

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="7333b20e-370c-4a47-9af7-e33c6e102513"><ac:plain-text-body><![CDATA[

typeDef Stanza

is_reflexive

property['is_reflexive']

]]></ac:plain-text-body></ac:structured-macro>

association.isReflexive

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="44f15bb6-d865-4eae-82ec-95d6cdaf0562"><ac:plain-text-body><![CDATA[

typeDef Stanza

is_symmetric

property['is_symmetric']

]]></ac:plain-text-body></ac:structured-macro>

association.isSymmetric

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="4cd03f69-2377-4f24-b10d-9c1d6f2cb01d"><ac:plain-text-body><![CDATA[

typeDef Stanza

is_transitive

property['is_transitive']

]]></ac:plain-text-body></ac:structured-macro>

association.isTransitive

typeDef Stanza

inverse_of

association.inverse

instance stanza

id

same rules as general stanza

same rules as general stanza

instance stanza

name

same rules as general stanza

same rules as general stanza

<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3b76b2e7-608a-4ec1-8a15-d3174139fa85"><ac:plain-text-body><![CDATA[

instance stanza

instance_of

association['has_instance']

]]></ac:plain-text-body></ac:structured-macro>

instance stanza

CodedEntry.property.property=""

data type properties go in Coded Entry property section

Model

<modelID>

<codingSchemeName>

<name>

<formalName>

<registeredName>

<defaultLanguage>

en*

<versionNumber>

<representsVersion>

<isNative>

0*

<approximateNumberofConcepts>

Result of count on concept bearing table?

<firstRelease>

MISSING

<modifiedRelease>

MISSING

<deprecated>

MISSING

<description>

<entityDescription>

<copyright>

MISSING

VCS_code_system

codeSystemId

codingScheme.registeredName

Moved to metadata file.