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Overview

This section is part of an addendum to the LexEVS 5.0 Design and Architecture Guide. It provides detail on how different formats are loaded into the LexEVS v5.0 model.

...

The Unified Medical Language System (UMLS) and Rich Release Format (RRF)

...

Files

The UMLS' large medical thesaurus is available as a set of text based, "|' " separated files which can be made subset into individual terminologies depending on the user's needs. NCI's MetaThesaurus is also RRF formatted. We map individual terminologies, the entire NCI MetaThesaurus and the UMLS terminology SEMNET into LexGrid Using specific loaders and mappings for each.

Supported Coding Scheme Attributes:

...

These aren't mapped as categories to a model element. That is, a supported association has an attributeTag column with a corresponding name, but it's context is implied in the name of the supported attribute. For instance, supported associations will have an attributeTag of "association" but that tag corresponds to no element in the model element SupportedAssociation. Instead the context is implied in the name of the element SupportedAssociation.
Preferred Presentation Selection:

...

Preferred Presentation is determined first by sorting the presentations to include first those in the default language of the Terminology. Following that and given there is more than one presentation in the default language the "most preferred" is determined in the following manner:
Using the "isPref" column, the "TS" and "STT" columns in the MRCONSO RRF file, or a combination of these columns. The MRRANK file overrides these columns.
Preferred Definition Selection:

...

Definitions in UMLs are not ranked, the first definition found for a concept in the source file MRDEF.RRF is set to preferred.
Special SNOMED adjustments for concept presentation language:

...

Snomed handles it's language default settings differently than other UMLS terminologies, we hard code it's default language as "en" as a result.
Presentation language is determined by combining the values of SUI, LUI and CUI from MRCONSO and selecting the ATV value from MRSAT where SAB always equals SNOMEDCT and the ATN value is either LANGUAGECODE or SUBSETLANGUAGECODE.
Association Qualifiers for medDRA and others:

...

MedDRA employs SMQ's or Standardized Medical Queries as a method of classifying portions of this terminology. These are expressed in MRSAT.RRF when the AUI in the METAUI column is replaced by a RUI code. In LexBIG is RUI is identified in the MRREL.RRF source as relationships are loaded and the associated ATN and ATV values from the MRSAT.RRF row are populated as association qualifier name and value.
Hierarchies expressed in source contexts:

...

Hierarchies in the UMLS are expressed in the MRREL.RRF file as source, target pairs. However source hierarchies may also be expressed in the MRHEIR.RRF file. These context based hierarchies are realized in LexBIG by accessing the MRHEIR source where the HCD column value is populate. When this is the case, as in MESH, the path of AUI's to root from the code in the HCD column is processed as a hierarchy. LexBIG's behavior is as follows:

...

- Entries in MRHIER that define multiple contexts (HCD field) per CUI will trigger additional tracking within the LexBIG environment.

...

- Each link is tracked via the corresponding contextual chain(Path To Root field). To do this, we add association qualifiers that tag the association between each participating concept. The qualifier name is 'HCD' and the value will be the HCD field value from the MRHIER file.

...

- An individual association between two concepts can participate in multiple context chains by assigning additional association qualifiers. A complete flow across the entire chain of links (essentially reconstructing PTR field) can be derived by recursive evaluation of surrounding links that have the same context qualifications. Since each concept can carry multiple text presentations, property qualifiers will be used to track the individual terms used in each context.

...

- As with associations, multiple qualifiers can be assigned to each text property. Once again, the qualifier name will be 'HCD' and the value will be the HCD field value from the MRHIER file.

...

- In order to query context-specific relationships, we can first use the API to filter the relationships a concept participates in, then query neighboring nodes to determine the complete context path, and finally map back to specific terms through the registered HCD qualifiers .

OBO Mapping

The OBO each remark in the document header will be combined and put into the coding scheme entityDescription.

...

Code Block
remark: autogenerated-by: DAG-Edit version 1.320 remark: saved-by: mariacos remark: date: Fri Jun 27 09:41:28 EDT 2003 remark: version: $Revision: 1.1 $

Protege OWL

DatatypeProperty Representation

Owl

...

Code Block
<owl:DatatypeProperty rdf:ID="currency"> <rdfs:domain rdf:resource="#Money"/> <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/> </owl:DatatypeProperty>

In LexGrid, a DatatypeProperty is combination of a conceptProperty and Assocation.

Concept Property

Code Block
<lgCon:concept id="Money"> <lgCommon:entityDescription>Money</lgCommon:entityDescription> .... <lgCon:conceptProperty propertyId="P0003" propertyName="currency"> <lgCommon:text>xsd:string</lgCommon:text> </lgCon:conceptProperty> </lgCon:concept>

Code Block

<lgCon:concept id="Money">
      <lgCommon:entityDescription>Money</lgCommon:entityDescription>
      ....
     <lgCon:conceptProperty propertyId="P0003" propertyName="currency">
        <lgCommon:text>xsd:string</lgCommon:text>
      </lgCon:conceptProperty>
    </lgCon:concept>

Association

Code Block
<lgRel:association id="hasDomain" forwardName="hasDomain" isReflexive="false" isSymmetric="false" isTransitive="true" reverseName="kindIsDomainOf"> <lgRel:sourceConcept sourceEntityType="association" sourceId="currency"> <lgRel:targetConcept targetEntityType="concept" targetId="Money"/> </lgRel:sourceConcept> <lgRel:association id="currency"> <associationProperty propertyId="P0007" propertyName="isDatatypeProperty"> <lgCommon:text>true</lgCommon:text> </associationProperty> <associationProperty propertyId="P0008" propertyName="isObjectProperty"> <lgCommon:text>false</lgCommon:text> </associationProperty> </lgRel:association> <lgRel:association id="datatype" forwardName="datatype"> <lgRel:sourceConcept sourceEntityType="association" sourceId="currency"> <lgRel:targetDataValue dataId="D0001"> <lgRel:dataValue>string</lgRel:dataValue> </lgRel:targetDataValue>

Code Block

<lgRel:association id="hasDomain" forwardName="hasDomain" 
isReflexive="false" isSymmetric="false" 
isTransitive="true" reverseName="kindIsDomainOf">  
      <lgRel:sourceConcept sourceEntityType="association" 
sourceId="currency">
        <lgRel:targetConcept targetEntityType="concept" 
targetId="Money"/>
      </lgRel:sourceConcept>

 <lgRel:association id="currency">
      <associationProperty propertyId="P0007" 
propertyName="isDatatypeProperty">
        <lgCommon:text>true</lgCommon:text>
      </associationProperty>
      <associationProperty propertyId="P0008" 
propertyName="isObjectProperty">
        <lgCommon:text>false</lgCommon:text>
      </associationProperty>
    </lgRel:association>

 <lgRel:association id="datatype" forwardName="datatype">
      <lgRel:sourceConcept sourceEntityType="association" 
sourceId="currency">
        <lgRel:targetDataValue dataId="D0001">
          <lgRel:dataValue>string</lgRel:dataValue>
        </lgRel:targetDataValue>

Equivalent Class Representation

Owl

...

Code Block
<owl:Class rdf:ID="Father"> <owl:equivalentClass> <owl:Class> <owl:intersectionOf rdf:parseType="Collection"> <owl:Class rdf:about="#Person"/> <owl:Restriction> <owl:onProperty> <owl:FunctionalProperty rdf:about="#hasSex"/> </owl:onProperty> <owl:hasValue rdf:resource="#MaleSex"/> </owl:Restriction> <owl:Restriction> <owl:someValuesFrom rdf:resource="#Person"/> <owl:onProperty> <owl:ObjectProperty rdf:about="#hasChild"/> </owl:onProperty> </owl:Restriction> </owl:intersectionOf> </owl:Class> </owl:equivalentClass> </owl:Class>

Code Block

<owl:Class rdf:ID="Father">
    <owl:equivalentClass>
      <owl:Class>
        <owl:intersectionOf rdf:parseType="Collection">
          <owl:Class rdf:about="#Person"/>
          <owl:Restriction>
            <owl:onProperty>
              <owl:FunctionalProperty rdf:about="#hasSex"/>
            </owl:onProperty>
            <owl:hasValue rdf:resource="#MaleSex"/>
          </owl:Restriction>
          <owl:Restriction>
            <owl:someValuesFrom rdf:resource="#Person"/>
            <owl:onProperty>
              <owl:ObjectProperty rdf:about="#hasChild"/>
            </owl:onProperty>
          </owl:Restriction>
        </owl:intersectionOf>
      </owl:Class>
    </owl:equivalentClass>
  </owl:Class>

In LexGrid, the equivalentClass is represented as an Association.

Association

Code Block
<lgRel:association id="equivalentClass" forwardName="equivalentClass" isReflexive="true" isSymmetric="true" isTransitive="true" reverseName="equivalentClass"> <lgRel:sourceConcept sourceEntityType="concept" sourceId="Father"> <lgRel:targetConcept targetEntityType="concept" targetId="A38"/> </lgRel:sourceConcept>

Code Block

<lgRel:association id="equivalentClass" 
forwardName="equivalentClass" isReflexive="true" isSymmetric="true" 
isTransitive="true" reverseName="equivalentClass"> 
  <lgRel:sourceConcept sourceEntityType="concept" sourceId="Father">
        <lgRel:targetConcept targetEntityType="concept" 	targetId="A38"/>
      </lgRel:sourceConcept>

Restriction Representation

Owl

...

Code Block
<owl:Class rdf:ID="Large-Format"> <rdfs:subClassOf rdf:resource="#Camera"/> <rdfs:subClassOf> <owl:Restriction> <owl:onProperty rdf:resource="#body"/> <owl:allValuesFrom rdf:resource="#BodyWithNonAdjustableShutterSpeed"/> </owl:Restriction> </rdfs:subClassOf> </owl:Class>

Code Block

<owl:Class rdf:ID="Large-Format">
          <rdfs:subClassOf rdf:resource="#Camera"/>
          <rdfs:subClassOf>
               <owl:Restriction>
                     <owl:onProperty rdf:resource="#body"/>
                     <owl:allValuesFrom rdf:resource="#BodyWithNonAdjustableShutterSpeed"/>
               </owl:Restriction>
          </rdfs:subClassOf>
     </owl:Class>

In LexGrid, a restriction is a combination of association and qualifier.

Association

...

Code Block
<lgRel:association codingSchemeId="p1" id="body" forwardName="body" isFunctional="false" isReverseFunctional="false" isSymmetric="false" isTransitive="false"> <lgRel:sourceConcept sourceCodingScheme="p1" sourceEntityType="concept" sourceId="Large-Format"> <lgRel:targetConcept targetEntityType="concept" targetId="BodyWithNonAdjustableShutterSpeed"> <lgRel:associationQualification associationQualifier="owl:allValuesFrom"/> </lgRel:targetConcept> </lgRel:sourceConcept> <associationProperty propertyId="P0021" propertyName="isDatatypeProperty"> <lgCommon:text>false</lgCommon:text> </associationProperty> <associationProperty propertyId="P0022" propertyName="isObjectProperty"> <lgCommon:text>true</lgCommon:text> </associationProperty> </lgRel:association>

Code Block

<lgRel:association codingSchemeId="p1" id="body" 
forwardName="body" isFunctional="false" 
isReverseFunctional="false" 
isSymmetric="false" isTransitive="false"> 
      <lgRel:sourceConcept sourceCodingScheme="p1" 
sourceEntityType="concept" sourceId="Large-Format">
        <lgRel:targetConcept targetEntityType="concept" 
targetId="BodyWithNonAdjustableShutterSpeed">
          <lgRel:associationQualification 
associationQualifier="owl:allValuesFrom"/>
        </lgRel:targetConcept>
      </lgRel:sourceConcept>
      <associationProperty propertyId="P0021" 
propertyName="isDatatypeProperty">
        <lgCommon:text>false</lgCommon:text>
      </associationProperty>
      <associationProperty propertyId="P0022" 
propertyName="isObjectProperty">
        <lgCommon:text>true</lgCommon:text>
      </associationProperty>
    </lgRel:association>

Additional Examples

Owl

...

Code Block
<owl:Class rdf:ID="Father"> <owl:equivalentClass> <owl:Class> <owl:intersectionOf rdf:parseType="Collection"> <owl:Class rdf:about="#Person"/> <owl:Restriction> <owl:onProperty> <owl:FunctionalProperty rdf:about="#hasSex"/> </owl:onProperty> <owl:hasValue rdf:resource="#MaleSex"/> </owl:Restriction> <owl:Restriction> <owl:someValuesFrom rdf:resource="#Person"/> <owl:onProperty> <owl:ObjectProperty rdf:about="#hasChild"/> </owl:onProperty> </owl:Restriction> </owl:intersectionOf> </owl:Class> </owl:equivalentClass> </owl:Class>

Code Block

<owl:Class rdf:ID="Father">
    <owl:equivalentClass>
      <owl:Class>
        <owl:intersectionOf rdf:parseType="Collection">
          <owl:Class rdf:about="#Person"/>
          <owl:Restriction>
            <owl:onProperty>
              <owl:FunctionalProperty rdf:about="#hasSex"/>
            </owl:onProperty>
            <owl:hasValue rdf:resource="#MaleSex"/>
          </owl:Restriction>
          <owl:Restriction>
            <owl:someValuesFrom rdf:resource="#Person"/>
            <owl:onProperty>
              <owl:ObjectProperty rdf:about="#hasChild"/>
            </owl:onProperty>
          </owl:Restriction>
        </owl:intersectionOf>
      </owl:Class>
    </owl:equivalentClass>
  </owl:Class>

LexGrid

...

Code Block
<lgRel:association id="equivalentClass" forwardName="equivalentClass" isReflexive="true" isSymmetric="true" isTransitive="true" reverseName="equivalentClass"> <lgRel:sourceConcept sourceEntityType="concept" sourceId="Father"> <lgRel:targetConcept targetEntityType="concept" targetId="A38"/> </lgRel:sourceConcept> <lgRel:association codingSchemeId="" id="hasSex" forwardName="hasSex" isFunctional="true" isReverseFunctional="false" isSymmetric="false" isTransitive="false"> <lgRel:sourceConcept sourceEntityType="concept" sourceId="A38"> <lgRel:targetConcept targetEntityType="concept" targetId="MaleSex"> <lgRel:associationQualification associationQualifier="owl:hasValue"/> </lgRel:targetConcept> <lgRel:association codingSchemeId="rdfs" id="subClassOf" forwardName="subClassOf" isFunctional="false" isReflexive="true" isSymmetric="false" isTransitive="true" reverseName="hasSubClass"> <lgRel:sourceConcept sourceEntityType="concept" sourceId="A38"> <lgRel:targetConcept targetEntityType="concept" targetId="Person"/> </lgRel:sourceConcept> <lgRel:association codingSchemeId="" id="hasChild" forwardName="hasChild" isFunctional="false" isReverseFunctional="false" isSymmetric="false" isTransitive="false"> <lgRel:sourceConcept sourceEntityType="concept" sourceId="A38"> <lgRel:targetConcept targetEntityType="concept" targetId="Person"> <lgRel:associationQualification associationQualifier="owl:someValuesFrom"/> </lgRel:targetConcept> <lgCon:concept id="A38" isAnonymous="true"> <lgCommon:entityDescription>Person and (hasSex has MaleSex) and (hasChild some Person)</lgCommon:entityDescription> <lgCon:presentation propertyId="P0002" propertyName="textualPresentation" isPreferred="true"> <lgCommon:text>Person and (hasSex has MaleSex) and (hasChild some Person)</lgCommon:text> </lgCon:presentation> <lgCon:conceptProperty propertyId="P0001" propertyName="type"> <lgCommon:text>owl:intersectionOf</lgCommon:text> </lgCon:conceptProperty> </lgCon:concept>

Code Block

<lgRel:association id="equivalentClass" 
forwardName="equivalentClass" isReflexive="true" 
isSymmetric="true" 
isTransitive="true" reverseName="equivalentClass"> 
  <lgRel:sourceConcept sourceEntityType="concept" 
sourceId="Father">
        <lgRel:targetConcept targetEntityType="concept" 	
targetId="A38"/>
      </lgRel:sourceConcept>


 <lgRel:association codingSchemeId="" id="hasSex" 
forwardName="hasSex" isFunctional="true" 
isReverseFunctional="false" 
isSymmetric="false" isTransitive="false"> 
    <lgRel:sourceConcept sourceEntityType="concept" 
sourceId="A38">
        <lgRel:targetConcept targetEntityType="concept" 
targetId="MaleSex">
          <lgRel:associationQualification 
associationQualifier="owl:hasValue"/>
        </lgRel:targetConcept>

<lgRel:association codingSchemeId="rdfs" id="subClassOf" 
forwardName="subClassOf" isFunctional="false" 
isReflexive="true" 
isSymmetric="false" isTransitive="true" 
reverseName="hasSubClass"> 
   <lgRel:sourceConcept sourceEntityType="concept" 
sourceId="A38">
        <lgRel:targetConcept targetEntityType="concept" 
targetId="Person"/>
      </lgRel:sourceConcept>

 <lgRel:association codingSchemeId="" id="hasChild" 
forwardName="hasChild" isFunctional="false" 
isReverseFunctional="false" isSymmetric="false" 
isTransitive="false"> 
   <lgRel:sourceConcept sourceEntityType="concept" 
sourceId="A38">
        <lgRel:targetConcept targetEntityType="concept" 
targetId="Person">
          <lgRel:associationQualification 
associationQualifier="owl:someValuesFrom"/>
        </lgRel:targetConcept>

<lgCon:concept id="A38" isAnonymous="true">
      <lgCommon:entityDescription>Person and 
(hasSex has MaleSex) 
and (hasChild some Person)</lgCommon:entityDescription> 
      <lgCon:presentation propertyId="P0002" 
propertyName="textualPresentation" isPreferred="true">
        <lgCommon:text>Person and (hasSex has MaleSex) and 
(hasChild 
some Person)</lgCommon:text>
      </lgCon:presentation>
      <lgCon:conceptProperty propertyId="P0001" 
propertyName="type">
        <lgCommon:text>owl:intersectionOf</lgCommon:text>
      </lgCon:conceptProperty>
    </lgCon:concept>

Property Restriction Representation

Anonymous LexGrid concepts are created for property restrictions (UnionOf, hasValue).

Example 1

Owl

...

Code Block
<owl:Class> <owl:unionOf rdf:parseType="Collection"> <owl:Class rdf:about="#Hot"/> <owl:Class rdf:ID="Medium"/> <owl:Class rdf:about="#Mild"/> </owl:unionOf> </owl:Class>

LexGrid

...

Code Block
<lgCon:concept id="A17" isAnonymous="true"> <lgCommon:entityDescription>Hot or Medium or Mild</lgCommon:entityDescription> <lgCon:presentation propertyId="P0001" propertyName="textualPresentation" isPreferred="true"> <lgCommon:text>Hot or Medium or Mild</lgCommon:text> </lgCon:presentation> <lgCon:conceptProperty propertyId="P0002" propertyName="isUnion"> <lgCommon:text>true</lgCommon:text> </lgCon:conceptProperty> <lgCon:conceptProperty propertyId="P0003" propertyName="isIntersection"> <lgCommon:text>false</lgCommon:text> </lgCon:conceptProperty> <lgCon:conceptProperty propertyId="P0004" propertyName="isEnumeration"> <lgCommon:text>false</lgCommon:text> </lgCon:conceptProperty> </lgCon:concept>

Code Block

<lgCon:concept id="A17" isAnonymous="true">
      <lgCommon:entityDescription>Hot or Medium or 
Mild</lgCommon:entityDescription>
      <lgCon:presentation propertyId="P0001" 
propertyName="textualPresentation" isPreferred="true">
        <lgCommon:text>Hot or Medium or Mild</lgCommon:text>
      </lgCon:presentation>
      <lgCon:conceptProperty propertyId="P0002" 
propertyName="isUnion">
        <lgCommon:text>true</lgCommon:text>
      </lgCon:conceptProperty>
      <lgCon:conceptProperty propertyId="P0003" 
propertyName="isIntersection">
        <lgCommon:text>false</lgCommon:text>
      </lgCon:conceptProperty>
      <lgCon:conceptProperty propertyId="P0004" 
propertyName="isEnumeration">
        <lgCommon:text>false</lgCommon:text>
      </lgCon:conceptProperty>
    </lgCon:concept>

Example 2

Owl

...

Code Block
<owl:Restriction> <owl:onProperty rdf:resource="#hasTopping"/> <owl:allValuesFrom> <owl:Class> <owl:unionOf rdf:parseType="Collection"> <owl:Class rdf:about="#MozzarellaTopping"/> <owl:Class rdf:about="#PeperoniSausageTopping"/> <owl:Class rdf:about="#JalapenoPepperTopping"/> <owl:Class rdf:about="#TomatoTopping"/> <owl:Class rdf:about="#HotGreenPepperTopping"/> </owl:unionOf> </owl:Class> </owl:allValuesFrom> </owl:Restriction>

Code Block

           <owl:Restriction>
                <owl:onProperty rdf:resource="#hasTopping"/>
                <owl:allValuesFrom>
                    <owl:Class>
                        <owl:unionOf rdf:parseType="Collection">
                            <owl:Class rdf:about="#MozzarellaTopping"/>
                            <owl:Class rdf:about="#PeperoniSausageTopping"/>
                            <owl:Class rdf:about="#JalapenoPepperTopping"/>
                            <owl:Class rdf:about="#TomatoTopping"/>
                            <owl:Class rdf:about="#HotGreenPepperTopping"/>
                        </owl:unionOf>
                    </owl:Class>
                </owl:allValuesFrom>
            </owl:Restriction>

LexGrid

...

Code Block
<lgRel:association id="hasTopping" forwardName="hasTopping" isFunctional="false" isNavigable="true" isReverseFunctional="true" isSymmetric="false" isTransitive="false"> <lgRel:sourceEntity sourceCodingScheme="pizza" sourceEntityType="concept" sourceId="AmericanHot"> <lgRel:targetEntity targetCodingScheme="pizza" targetEntityType="concept" targetId="A16"> <lgRel:associationQualification associationQualifier="owl:allValuesFrom"/> </lgRel:targetEntity> </lgRel:sourceEntity> </lgRel:association> <rdfs:subClassOf> <owl:Restriction> <owl:onProperty rdf:resource="#hasTopping"/> <owl:allValuesFrom> <owl:Class> <owl:unionOf rdf:parseType="Collection"> <owl:Class rdf:about="#MozzarellaTopping"/> <owl:Class rdf:about="#PeperoniSausageTopping"/> <owl:Class rdf:about="#JalapenoPepperTopping"/> <owl:Class rdf:about="#TomatoTopping"/> <owl:Class rdf:about="#HotGreenPepperTopping"/> </owl:unionOf> </owl:Class> </owl:allValuesFrom> </owl:Restriction> </rdfs:subClassOf> <lgCon:concept id="A16" isActive="true" isAnonymous="true"> <lgCommon:entityDescription>MozzarellaTopping or PeperoniSausageTopping or JalapenoPepperTopping or TomatoTopping or HotGreenPepperTopping</lgCommon:entityDescription> <lgCon:presentation propertyId="P0002" propertyName="textualPresentation" isPreferred="true"> <lgCommon:text>MozzarellaTopping or PeperoniSausageTopping or JalapenoPepperTopping or TomatoTopping or HotGreenPepperTopping</lgCommon:text> </lgCon:presentation> <lgCon:conceptProperty propertyId="P0001" propertyName="type"> <lgCommon:text>owl:unionOf</lgCommon:text> </lgCon:conceptProperty> </lgCon:concept>

Code Block

<lgRel:association id="hasTopping" forwardName="hasTopping" 
isFunctional="false" isNavigable="true" isReverseFunctional="true" 
isSymmetric="false" isTransitive="false">

    <lgRel:sourceEntity sourceCodingScheme="pizza" 
sourceEntityType="concept" sourceId="AmericanHot">
        <lgRel:targetEntity targetCodingScheme="pizza" 
targetEntityType="concept" targetId="A16">
          <lgRel:associationQualification 
associationQualifier="owl:allValuesFrom"/>
        </lgRel:targetEntity>
      </lgRel:sourceEntity>
  </lgRel:association>


        <rdfs:subClassOf>
            <owl:Restriction>
                <owl:onProperty rdf:resource="#hasTopping"/>
                <owl:allValuesFrom>
                    <owl:Class>
                        <owl:unionOf rdf:parseType="Collection">
                            <owl:Class 
rdf:about="#MozzarellaTopping"/>
                            <owl:Class 
rdf:about="#PeperoniSausageTopping"/>
                            <owl:Class 
rdf:about="#JalapenoPepperTopping"/>
                            <owl:Class rdf:about="#TomatoTopping"/>
                            <owl:Class 
rdf:about="#HotGreenPepperTopping"/>
                        </owl:unionOf>
                    </owl:Class>
                </owl:allValuesFrom>
            </owl:Restriction>
        </rdfs:subClassOf>


<lgCon:concept id="A16" isActive="true" isAnonymous="true">
      <lgCommon:entityDescription>MozzarellaTopping or 
PeperoniSausageTopping or JalapenoPepperTopping or TomatoTopping or 
HotGreenPepperTopping</lgCommon:entityDescription>
      <lgCon:presentation propertyId="P0002" 
propertyName="textualPresentation" isPreferred="true">
        <lgCommon:text>MozzarellaTopping or PeperoniSausageTopping 
or JalapenoPepperTopping or TomatoTopping or 
HotGreenPepperTopping</lgCommon:text>
      </lgCon:presentation>
      <lgCon:conceptProperty propertyId="P0001" propertyName="type">
        <lgCommon:text>owl:unionOf</lgCommon:text>
      </lgCon:conceptProperty>
    </lgCon:concept>

NCI OWL

Top-level containers for relations are created, which separate the association types based on the notion of 'associations' and 'roles' as defined by NCI:

...

If no equivalent class for a concept, it is considered primitive and is indicated by creating a concept property set to 'true.'

NCI OWL Embedded XML

Property text with embedded XML fragments are identified by by the following identifiers:

qual-name
qual-value
qual

If the extracted tag is one of XML Text identifiers:

Value
term-name
def-definition
go-term

The text of the property is set to the tag value.

If the extracted tag is one of XML Source Name identifiers:

term-source
def-source

A property source is created and the tag value identifies the source.

...

A property qualifier is created. The property qualifier id is set to the tag, the value is set to the tag value.

HL7 RIM

Building a Single Coding Scheme

To build a single coding scheme from the HL7 MS Access database, implementation is similar to how the NCI MetaThesaurus is stored in LexGrid.

For example, here is how entries MTHU021347 and MTHU033458 in ICPC2ICD10ENG (NCI MethThesaurus C1394796) are structured in LexGrid:

Coding Scheme: NCI MetaThesaurus - urn:oid:2.16.840.1.113883.3.26.1.2
Concept Code: C1394796
Entity Description: decompensation; heart, senile
Status: Active
Is Active: true
Is Anonymous: false
Presentation: decompensation; heart, senile
Property Name: textualPresentation
Property Id: T-1
Language: ENG
Is Preferred: true
Representational Form: PT
Source: ICPC2ICD10ENG , Role: null, SubRef: null
Property Qualifier Id: source-code , Property Qualifier Content: MTHU021347
Presentation: heart; decompensation, senile
Property Name: textualPresentation
Property Id: T-2
Language: ENG
Is Preferred: false
Representational Form: PT
Source: ICPC2ICD10ENG , Role:''' null, SubRef: null
Property Qualifier Id: source-code , Property Qualifier Content: MTHU033458
ConceptProperty: Mental or Behavioral Dysfunction
Property Name: Semantic_Type
Property Id: SemType-1

In HL7, code systems, concepts, and designations are in the following tables:

Table: VCS_concept_code_xref

Internal concept identifier	Code system	OID	Case difference Status
10011	2.16.840.1.113883.5.55	M	A
10011	2.16.840.1.113883.5.55	R	A
10013	2.16.840.1.113883.5.55	RQ	A
10014	2.16.840.1.113883.5.55	NP	A
10015	2.16.840.1.113883.5.55	NR	A
10016	2.16.840.1.113883.5.55	RE	A
10017	2.16.840.1.113883.5.55	X	A
10019	2.16.840.1.113883.5.57	R	A
10020	2.16.840.1.113883.5.57	D	A
10021	2.16.840.1.113883.5.57	I	A
10022	2.16.840.1.113883.5.57	K	A
10023	2.16.840.1.113883.5.57	V	A
10025	2.16.840.1.113883.5.57	ESA	A
10026	2.16.840.1.113883.5.57	ESD	A
10027	2.16.840.1.113883.5.57	ESC	A
10028	2.16.840.1.113883.5.57	ESAC	A

Table: VCS_concept_designation

Internal Id	Designation	seq - for case differences	language	preferredForLanguage
10011	Mandatory	0	en	-1
10011	Required - V2.x	0	en	0

Query of HL7 internal id, concept code and designation:

codeSystemName	Code system OID	Internal concept identifier	Concept code	Designation
HL7ConformanceInclusion	2.16.840.1.113883.5.55	10011	R	Required - V2.x
HL7ConformanceInclusion	2.16.840.1.113883.5.55	10011	M	Mandatory
HL7ConformanceInclusion	2.16.840.1.113883.5.55	10011	M	Required - V2.x
HL7ConformanceInclusion	2.16.840.1.113883.5.55	10011	R	Mandatory

Representing HL7 in LexGrid

To represent HL7 in LexGrid:

A single coding scheme will be created in LexGrid.
Each VCS_concept_code_xref.internalId will be represented as a LexGrid Concept Code.
The LexGrid Concept Code will be generated by the concatination of VCS_concept_code_xref.internalId and VCS_concept_code_xref.conceptCode2 (separated by a colon ':' ).
Not only the duplicates that exist within coding schemes will be dealt with using the id/mnemonic concatenation but also those duplicates that exist between coding schemes.
A LexGrid Concept Code Presentation Property will be created for each HL7 designation (VCS_concept_designation).
The Presentation Property will include Presentation (HL7 Designation), Source (HL7 codeSystemName) and a Property Qualifier of source-code (HL7 Concept Code).

For example, the following structure represents both HL7 10011 entries in code system 2.16.840.1.113883.5.55:

Coding Scheme: HL7 - urn:oid:2.16.840.1.113883.3.26.1.2
Concept Code:

...

Highlight
color blue
10011:M
Entity Description: >The message element must appear every time the message is communicated and its value must not be null. This condition is subject to the rules of multiplicity and conditionality. If a non-null default value is defined for the element, a null value may be communicated.
Status: Active
Is Active: true
Is Anonymous: false
Presentation:

...

Highlight
color blue
Mandatory
- Property Name: textualPresentation
- Property Id: T-1
- Language: ENG
- Is Preferred: true
- Representational Form: PT
- Source:

...

- Highlight
  color blue
  HL7ConformanceInclusion
  , Role: null, SubRef: null
- Property Qualifier Id:

...

- Highlight
  color blue
  source-code
  , Property Qualifier Content:

...

- Highlight
  color blue
  M
Presentation:
Highlight
color blue
Required - V2.x

...

- Property Name: textualPresentation
- Property Id: T-2
- Language: ENG
- Is Preferred: false
- Representational Form: PT
- Source:

...

- Highlight
  color blue
  HL7ConformanceInclusion
  Role: null, SubRef: null
- Property Qualifier Id:

...

- Highlight
  color blue
  source-code
  , Property Qualifier Content:

...

- Highlight
  color blue
  M
Coding Scheme: HL7 - urn:oid:2.16.840.1.113883.3.26.1.2
Concept Code:

...

Highlight
color blue
10011:R
Entity Description: >The message element must appear every time the message is communicated and its value must not be null. This condition is subject to the rules of multiplicity and conditionality. If a non-null default value is defined for the element, a null value may be communicated.
Status: Active
Is Active: true
Is Anonymous: false
Presentation:

...

Highlight
color blue
Mandatory
- Property Name: textualPresentation
- Property Id: T-1
- Language: ENG
- Is Preferred: true
- Representational Form: PT
- Source:

...

- Highlight
  color blue
  HL7ConformanceInclusion
  , Role: null, SubRef: null
- Property Qualifier Id:

...

- Highlight
  color blue
  source-code
  , Property Qualifier Content:

...

- Highlight
  color blue
  R
Presentation: Required - V2.x
- Property Name: textualPresentation
- Property Id: T-2
- Language: ENG
- Is Preferred: false
- Representational Form: PT
- Source:

...

- Highlight
  color blue
  HL7ConformanceInclusion
  , Role: null, SubRef: null
- Property Qualifier Id:

...

- Highlight
  color blue
  source-code
  , Property Qualifier Content:
  Highlight
  color blue
  R

Loading the HL7 RIM as a Monolithic Coding Scheme

To load <span style="background-color: #99FFFF">R</span>Loading the HL7 Rim as a monolithic coding scheme:1.

Load coding scheme data as HL7 Rim Metadata from the Model table (rather than the coding scheme data for each HL7 coding scheme).

...

Mapping of these values will be incomplete:

...

1. 1. Mapping proposal:
    LexGrid
    HL7 RIM
    <codingSchemeName>
    <modelID>
    <formalName>
    <name>
    <registeredName>
    http://www.hl7.org/Library/data-model/RIM

...

*
<defaultLanguage>	en*
<representsVersion>	<versionNumber>
<isNative>	0*
<approximateNumberofConcepts>	Result of count on concept bearing table?
<firstRelease>	MISSING
<modifiedInRelease>	MISSING
<deprecated>	MISSING
<entityDescription>	<description>
<copyright>	MISSING

...

1. No URN exists and we may need to consider creating one (see entry for registeredName).

...

Locate and load all mappings (such as supportedAssociations and supportedProperties).

...

1. Create a supportedHiearchy with a root node of @ on hasSubtype?

...

Iterate through the code system table rows and get each coding scheme.

...

1. Create and persist an "@" node in the database

...

Prepare an artificial "top node" for each coding scheme. (Metadata persisted here as concept properties?) This will result in 250 top nodes.

...

1. 1. The artificial top nodes will need to have a concept code created for them.

...

1. 1. Attach to "@" the artificial top nodes as a hasSubtype.

...

1. 1. Locate the actual top nodes of each coding scheme by querying the relations table to see if they exist as a target code, if not, they are top nodes so attach them to the artificial top node via hasSubtype.

...

Translate the RRF source property loads to the EMF world.

...

1. 1. Load the concepts ensuring that the coding scheme name is loaded as a "source" property

...

1. 1. Load the relations ensuring that the source and target coding scheme data is loaded with the coding scheme name.

...

Concurrent to this process create an updated "HL7 RIM to LexGrid for NCI" mapping from the current Excel mapping document.

LexGrid Text

The text files that can be imported must use the following formats. Items surrounded by <> are required. Items further surrounded by [] are optional. \t represents a tab - the default delimiter - however other delimiters may be used.

Lines beginning with # are comments.

Format A

Code Block

<codingSchemeName>\t<codingSchemeId>\t<defaultLanguage>\t<formal
Name>[\t<version>][\t<source>][\t<description>][\t<copyright>]
<name1>[\t <description>] 
\t <name2>[\t <description>] 
\t\t <name3>[\t <description>]
\t\t <name4>[\t <description>]

The leading tabs represent hierarchical "hasSubtype" relationship nesting:
(name1 hasSubtype name2 and name2 hasSubtype name3)
Concept Codes will be automatically generated.
If a name is used more than once - it will be assigned the same code.
If a description is used more than once (for a given name) only the first description will be stored.

Format B

In this format, concept codes can be provided. This is the same as "Format A" with the inclusion of concept codes as part of the input.

...

If the same code occurs twice, the names must match. Description rules same as "Format A."

Example of Format A

Code Block

<nowiki>#</nowiki>lines#lines starting with "#" are comments

<nowiki>#</nowiki>blank#blank lines are ok 

<nowiki>#</nowiki>the#the first "real" line of the file must be of the following format:
<nowiki>#</nowiki><codingSchemeName>#<codingSchemeName>\t<codingSchemeId>\t<defaultLanguage>\t<formalName>[\t<version>][\t<source>][\t<description>][\t<copyright>]

colors	1.2.3	en	colors coding scheme	 1.0	Someone's Head	a simple example coding scheme using colors	This isn't worth copyrighting

<nowiki>#</nowiki>The#The rest of the file (for format A) should look like this:

Color	        Holder of colors
Red
Green	        The color Green
Light Green	foobar
Dark Green	The color dark green
Blue
Red
Green	        The color Green

Example of Format B

Code Block

<nowiki>#</nowiki>lines#lines starting with "#" are comments

<nowiki>#</nowiki>blank#blank lines are ok 

<nowiki>#</nowiki>the#the first "real" line of the file must be of the following format:
<nowiki>#</nowiki><codingSchemeName>#<codingSchemeName>\t<codingSchemeId>\t<defaultLanguage>\t<formalName>[\t<version>][\t<source>][\t<description>][\t<copyright>]

colors2	1.2.4	en	colors coding scheme	1.1	Someone's Head	a simple example coding scheme using colors	This isn't worth copyrighting

<nowiki>#</nowiki>The#The rest of the file (for format B) should look like this:

1	Color	             Holder of colors
4	Red
6	Green	             The color Green
7	Light Green
8	Dark Green
5	Blue
8	Dark Green	     The color dark green
6	Green	             A different color of green

LexEVS Loader Mappings

The following sections give detailed mappings from source formats to LexEVS.

OWL Mapping - 4.2.1

OWL Mapping - Protégé (4.2.1)

OWL ElementLexGrid	Comments	OWL: RDF Schema Features	LexGrid	Comments
owl:ontology	codingScheme	No comments
xml:lang	codingScheme.defaultLanguage	Default is 'en'
dc:title	codingScheme.formalName	No comments
rdfs:label	codingScheme.localName	No comments
URI	codingScheme.registeredName	No comments
owl:versionInfo	codingScheme.representsVersion	Default is 'UNASSIGNED'
dc:rights	codingScheme.copyright	No comments
owl:Class (Thing, Nothing)	concept	No comments
rdf:ID	concept.conceptCode	No comments
rdf:ID	concept.isActive	Hard coded as "Active"
rdf:ID	concept.isAnonymous	No comments
rsfs:label	concept.entityDescription	No comments
rdf:comment	concept.comment	No comments
rdfs:subClassOf	association	No comments
rdfs:subClassOf	association.id = "subClassOf"	No comments
rdfs:subClassOf	association.forwardName = "subClassOf"	No comments
rdfs:subClassOf	association		association.isFunctional = "false"	No comments
rdfs:subClassOf	association.isNavigable = "true"	No comments
rdfs:subClassOf	association.isReflexive="true"


"	No comments
rdfs:subClassOf	association.isSymmetric="false"	No comments
rdfs:subClassOf	association.isTransitive="true"	No comments
rdf:Property (ObjectProperty)	association	An association between two classes (hasDomain, hasRange)
rdf:Property (DatatypePropertyObjectProperty)	association concept.conceptProperty	An association between one class (domain) and one asscoication (hasDomain and hasDataProperty). The conceptProperty defines the range.
rdfs:subPropertyOf	association	No comments
rdfs:subPropertyOf	association.id = "subPropertyOf"	No comments
rdfs:subPropertyOf	association.forwardName = "subPropertyOf"	No comments
rdfs:subPropertyOf	association.isFunctional = "false"	No comments
rdfs:subPropertyOf	association.isNavigable = "true"



No comments
rdfs:domain association subPropertyOf		association.id isReflexive="hasDomaintrue"	No comments
rdfs:subPropertyOf	association.forwardName isSymmetric="hasDomainfalse"	No comments
rdfs:subPropertyOf	association.isNavigable isTransitive="true"



No comments
rdfs:domain	association	No comments
rdfs:range	association	domain	association.id = "hasRangehasDomain"	No comments
rdfs:domain	association.forwardName = "hasRangehasDomain"	No comments
rdfs:domain	association.isNavigable = "true"




Individual	association	A 'hasInstance' association is created. (ie. sourceId = Country, targetId = America)
	association.id = "hasInstance"
OWL (In)Equality
owl:equivalentClass	association
No comments
rdfs:domain	association.isReflexive="false"	No comments
rdfs:domain	association.isSymmetric="false"	No comments
rdfs:domain	association.isTransitive="true"	No comments
rdfs:range	association	No comments
rdfs:range	association.id = "equivalentClasshasRange"	No comments
rdfs:range	association.forwardName = "equivalentClasshasRange"
	association.isFunctional = "false"
No comments
rdfs:range	association.isNavigable = "true"





owl:equivalentProperty	association
No comments
rdfs:range	association.id isReflexive="equivalentPropertyfalse"	No comments
rdfs:range	association.forwardName isSymmetric="equivalentPropertyfalse"	No comments
rdfs:range	association.isFunctional isTransitive="false"
	association.isNavigable = "true"





owl:sameAs	association
No comments
Individual	association	A 'hasInstance' association is created. (ie. sourceId = Country, targetId = America)
Individual	association.id = "hasInstance"	No comments

OWL: Property Characteristics

OWL Element OWL (In)Equality	LexGrid	Comments
owl:equivalentClass	association	No comments
owl:equivalentClass	association.id = "sameAsequivalentClass"	No comments
owl:equivalentClass	association.forwardName = "sameAsequivalentClass"	No comments
owl:equivalentClass	association.isFunctional = "false"	No comments
owl:equivalentClass	association.isNavigable = "true"





differentFrom	association
	association.id = "differentFrom"
	association.forwardName = "differentFrom"
	association.isFunctional = "false"
No comments
owl:equivalentClass	association.isReflexive="true"	No comments
owl:equivalentClass	association.isSymmetric="true"	No comments
owl:equivalentClass	association.isTransitive		association.isNavigable ="true"



No comments
owl:equivalentClass	association.reverseName="differentFromequivalentClass"	No comments
owl:AllDifferent equivalentProperty	association	No comments
owl:equivalentProperty	association.id = "AllDifferentequivalentProperty"	No comments
owl:equivalentProperty	association.forwardName = "AllDifferentequivalentProperty"	No comments
owl:equivalentProperty	association.isFunctional = "false"	No comments
owl:equivalentProperty	association.isNavigable = "true"	No comments
owl:equivalentProperty	association.isReflexive="true"



No comments
owl:equivalentProperty	association.isSymmetric="true"	No comments
owl:equivalentProperty	association.reverseNameisTransitive="AllDifferenttrue"	No comments
owl:equivalentProperty	association.reverseName="equivalentProperty"	No comments
owl:inverseOf sameAs	association	No comments
owl:sameAs	association.id = "inverseOfsameAs"	No comments
owl:sameAs	association.forwardName = "inverseOfsameAs"	No comments
owl:sameAs	association.isFunctional = "false"	No comments
owl:sameAs	association.isNavigable = "true"




No comments
owl:TransitiveProperty sameAs	association.isTransitive association property 'isTransitive' isReflexive="true"	No comments
owl:SymmetricProperty sameAs	association.isSymmetric association property 'isSymmetric' ="true"	No comments
owl:InverseFunctionalProperty sameAs	association.isReverseFunctional association property 'isReverseFunctional' isTransitive="true"	No comments
owl:FunctionalProperty sameAs	association.isFunctional	association property 'isFunctional'	reverseName="sameAs"	No comments
differentFrom	association	No comments
differentFrom	association.id = "differentFrom"	No comments
differentFrom	association.forwardName = "differentFrom"	No comments
differentFrom	association.isFunctional = "false"	No comments
differentFrom	association.isNavigable = "true"	No comments
differentFrom	association.isReflexive="true"	No comments
differentFrom	association.isSymmetric="true"	No comments
differentFrom	association.isTransitive="true"	No comments
differentFrom	association.reverseName= "differentFrom"	No comments
owl:AllDifferent	association	No comments
owl:AllDifferent	association.id = "AllDifferent"	No comments
owl:AllDifferent	association.forwardName = "AllDifferent"	No comments
owl:AllDifferent	association.isFunctional = "false"	No comments
owl:AllDifferent	association.isNavigable = "true"	No comments
owl:AllDifferent	association.isReflexive="true"	No comments
owl:AllDifferent	association.isSymmetric="true"	No comments
owl:AllDifferent	association.isTransitive="true"	No comments
owl:AllDifferent	association.reverseName= "AllDifferent"	No comments

OWL Element OWL: Property Characteristics	LexGrid	Comments
owl:inverseOf	association	No comments
owl:inverseOf	association.id = "inverseOf"	No comments
owl:inverseOf	association.forwardName = "inverseOf"	No comments
owl:inverseOf	association.isFunctional = "false"	No comments
owl:inverseOf	association.isNavigable = "true"	No comments
owl:inverseOf	association.isReflexive="true"	No comments
owl:inverseOf	association.isSymmetric="true"	No comments
owl:inverseOf	association.isTransitive="true"	No comments
owl:inverseOf	association.reverseName="inverseOf"	No comments
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 Element OWL: Property Restrictions	LexGrid	Comments
owl:Restriction	concept	Create an anonymous concept for the restriction
owl:Restriction	concept.id	System generated
owl:Restriction	concept.isActive = true	No comments
owl:Restriction	concept.isAnonymous = true	Hardcoded "True"
owl:onProperty	association.id	No comments
owl: allValuesFrom	concept.entityDescription	String of allValuesFrom values
owl: allValuesFrom
OWL: Property Restrictions
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.
owl: allValuesFrom	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl: allValuesFrom	concept.presentation.isPreferred = true	Hardcoded "true"
owl: allValuesFrom	concept.presentation.text	String of oneOf allValuesFrom values
owl: allValuesFrom	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl: allValuesFrom	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl: allValuesFrom	concept.conceptProperty.text = "owl:intersectionOfunionOf"	No comments
owl: hasValue someValuesFrom	associationQualification.nameAndValueList.content
owl:minCardinality	concept.entityDescription	String of minCardinality Values (ie. (hasTopping min 3) and Pizza)
concept.entityDescription	String of someValuesFrom values
owl: someValuesFrom	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl: someValuesFrom	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl: someValuesFrom	concept.presentation.isPreferred = true	Hardcoded "true"
owl: someValuesFrom	concept.presentation.text	String of minCardinality Value (ie. (hasTopping min 3) and Pizza) someValuesFrom values
owl: someValuesFrom	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl: someValuesFrom	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl: someValuesFrom	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:maxCardinality intersectionOf	concept.entityDescription	String of maxCardinality Values intersectionOf values (ie. (hasTopping max 2) and Pizza) Pizza and not VegetarianPizza)
owl:intersectionOf	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:intersectionOf	concept.presentation.isPreferred = true	Hardcoded "true"
owl:intersectionOf	concept.presentation.text	String of maxCardinality Values intersectionOf values (ie. (hasTopping max 2) and Pizza) Pizza and not VegetarianPizza)
owl:intersectionOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:intersectionOf	concept.conceptProperty.text = "owl:intersectionOf"
	String of cardinality Values
owl:cardinality	concept.entityDescription
No comments
UnionOf	concept.conceptProperty.text = "owl:unionOf"	concept.conceptProperty.text = "owl:unionOf"
owl:complementOf	association	association.id = "subClassOf"
owl:oneOf	concept.entityDescription	String of oneOf values
owl:oneOf		concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:oneOf	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:oneOf	concept.presentation.isPreferred = true	Hardcoded "true"
owl:oneOf	concept.presentation.text	String of cardinality Values oneOf values
owl:oneOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:oneOf	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:oneOf	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:disjointWith	association	association.id = "disjointWith"
OWL: Annotation Property
rdfs:label	Presentation
hasValue	associationQualification.nameAndValueList.content	No comments
owl:minCardinality	concept.entityDescription	String of minCardinality Values (ie. (hasTopping min 3) and Pizza)
owl:minCardinality	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:minCardinality	concept.presentation.propertyName = "textualPresentation"	Hardcoded "textualPresentation"
owl:minCardinality	concept.presentation.isPreferred = true	Hardcoded "true"
owl:minCardinality	concept.presentation.text	Value of rdfs:label

rdfs:comment	Comment
String of minCardinality Value (ie. (hasTopping min 3) and Pizza)
owl:minCardinality	concept.commentconceptProperty.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:minCardinality	concept.commentconceptProperty.propertyName = "comment" type	Hardcoded "commenttype"
owl:minCardinality	concept.presentationconceptProperty.text	Value of rdfs:comment

rdfs:seeAlso	conceptProperty
rdfs:isDefinedBy	conceptProperty
OWL: Versioning
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"




DeprecatedClass	Concept attribute setIsActive = false	Not Mapped
DeprecatedProperty	Not Mapped

OWL Mapping - 5.0

= "owl:intersectionOf"	No comments
owl:maxCardinality	concept.entityDescription	String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)
owl:maxCardinality	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:maxCardinality	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:maxCardinality	concept.presentation.isPreferred = true	Hardcoded "true"
owl:maxCardinality	concept.presentation.text	String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)
owl:maxCardinality	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:maxCardinality	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:maxCardinality	concept.conceptProperty.text = "owl:intersectionOf"	String of cardinality Values
owl:cardinality	concept.entityDescription	No comments
owl:cardinality	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:cardinality	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:cardinality	concept.presentation.isPreferred = true	Hardcoded "true"
owl:cardinality	concept.presentation.text	String of cardinality Values
owl:cardinality	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:cardinality	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:cardinality	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:disjointWith	association	association.id = "disjointWith"

OWL Element OWL: Annotation Property	LexGrid	Comments
rdfs:label	Presentation	No Comments
rdfs:label	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
rdfs:label	concept.presentation.propertyName = "textualPresentation"	Hardcoded "textualPresentation"
rdfs:label	concept.presentation.isPreferred = true	Hardcoded "true"
rdfs:label	concept.presentation.text	Value of rdfs:label
rdfs:comment	Comment	No comments
rdfs:comment	concept.comment.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
rdfs:comment	concept.comment.propertyName = "comment"	Hardcoded "comment"
rdfs:comment	concept.presentation.text	Value of rdfs:comment
rdfs:seeAlso	conceptProperty	No comments
rdfs:isDefinedBy	conceptProperty	No comments

OWL Element OWL: Versioning	LexGrid	Comments
owl:versionInfo	codingScheme.representsVersion	No comments
priorVersion	None	Not mapped
backwardCompatibleWith	None	Not mapped
owl:incompatibleWith	association	No comments
owl:incompatibleWith	association.id = "incompatibleWith"	No comments
owl:incompatibleWith	association.forwardName = "incompatibleWith"	No comments
owl:incompatibleWith	association.isFunctional = "false"	No comments
owl:incompatibleWith	association.isNavigable = "true"	No comments
owl:incompatibleWith	association.isReflexive="true"	No comments
owl:incompatibleWith	association.isSymmetric="true"	No comments
owl:incompatibleWith	association.isTransitive="true"	No comments
owl:incompatibleWith	association.reverseName="incompatibleWith"	No comments
DeprecatedClass	Concept attribute setIsActive = false	Not mapped
DeprecatedProperty	None	Not mapped

OWL Mapping - 5.0

WL Mapping - Protégé (5.0)

OWL Element OWL: RDF Schema Features	LexEVS	Comments
owl:ontology	codingScheme	No comments
xml:lang	codingScheme.defaultLanguage	Default is 'en'
dc:title	codingScheme.formalName	No comments
rdfs:label	codingScheme.localName	No comments
URI	codingScheme.registeredName	No comments
owl:versionInfo	codingScheme.representsVersion	Default is 'UNASSIGNED'
dc:rights	codingScheme.copyright	No comments
owl:Class (Thing, Nothing)	concept	No comments
rdf:ID	concept.conceptCode	No comments
rdf:ID	concept.isActive	Hard coded as "Active"
rdf:ID	concept.isAnonymous	No comments
rdf:ID	concept.isDefined	No comments
rsfs:label	concept.entityDescription	No comments
rdf:comment	concept.comment	No comments
rdfs:subClassOf	association	No comments
rdfs:subClassOf	association.id = "subClassOf"	No comments
rdfs:subClassOf	association.forwardName = "subClassOf"	No comments
rdfs:subClassOf	association.isFunctional = "false"	No comments
rdfs:subClassOf
OWL Mapping - Protégé (5.0)
OWL Element	LexEVS	Comments
OWL: RDF Schema Features
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"



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"




rdfs:domain	association
	association.id = "domain"
	association.forwardName = "domain"
	association.isNavigable = "true"




rdfs:range	association
	association.id = "range"
	association.forwardName = "range"
	association.isNavigable = "true"




Individual	association	An 'instance' association is created. (ie. sourceId = Country, targetId = America)
	association.id = "instance"
OWL (In)Equality
owl:equivalentClass	association
	association.id = "equivalentClass"
	association.forwardName = "equivalentClass"
	association.isFunctional = "false"
	association.isNavigable = "true"





owl:equivalentProperty	association
	association.id = "equivalentProperty"
	association.forwardName = "equivalentProperty"
	association.isFunctional = "false"
	association.isNavigable = "true"





owl:sameAs	association
	association.id = "sameAs"
	association.forwardName = "sameAs"
	association.isFunctional = "false"
	association.isNavigable = "true"





differentFrom	association
	association.id = "differentFrom"
	association.forwardName = "differentFrom"
	association.isFunctional = "false"
	association.isNavigable = "true"



	association.reverseName= "differentFrom"

owl:AllDifferent	association
	association.id = "AllDifferent"
	association.forwardName = "AllDifferent"
	association.isFunctional = "false"
	association.isNavigable = "true"



	association.reverseName= "AllDifferent"

OWL: Property Characteristics
owl:inverseOf	association
	association.id = "inverseOf"
	association.forwardName = "inverseOf"
	association.isFunctional = "false"
	association.isNavigable = "true"





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: Property Restrictions
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"
	String of cardinality Values
No comments
rdfs:subClassOf	association.isReflexive="true"	No comments
rdfs:subClassOf	association.isSymmetric="false"	No comments
rdfs:subClassOf	association.isTransitive="true"	No comments
rdf:Property (ObjectProperty)	association	An association between two classes (domain, range)
rdf:Property (ObjectProperty)	association concept.conceptProperty	An association between one class (domain) and one association (domain and hasDataProperty). The conceptProperty defines the range.
rdfs:subPropertyOf	association	No comments
rdfs:subPropertyOf	association.id = "subPropertyOf"	No comments
rdfs:subPropertyOf	association.forwardName = "subPropertyOf"	No comments
rdfs:subPropertyOf	association.isFunctional = "false"	No comments
rdfs:subPropertyOf	association.isNavigable = "true"	No comments
rdfs:subPropertyOf	association.isReflexive="true"	No comments
rdfs:subPropertyOf	association.isSymmetric="false"	No comments
rdfs:subPropertyOf	association.isTransitive="true"	No comments
rdfs:domain	association	No comments
rdfs:domain	association.id = "domain"	No comments
rdfs:domain	association.forwardName = "domain"	No comments
rdfs:domain	association.isNavigable = "true"	No comments
rdfs:domain	association.isReflexive="false"	No comments
rdfs:domain	association.isSymmetric="false"	No comments
rdfs:domain	association.isTransitive="true"	No comments
rdfs:range	association	No comments
rdfs:range	association.id = "range"	No comments
rdfs:range	association.forwardName = "range"	No comments
rdfs:range	association.isNavigable = "true"	No comments
rdfs:range	association.isReflexive="false"	No comments
rdfs:range	association.isSymmetric="false"	No comments
rdfs:range	association.isTransitive="false"	No comments
Individual	association	An 'instance' association is created. (ie. sourceId = Country, targetId = America)
Individual	association.id = "instance"	No comments

OWL Element OWL (In)Equality	LexEVS	Comments
owl:equivalentClass	association	No comments
owl:equivalentClass	association.id = "equivalentClass"	No comments
owl:equivalentClass	association.forwardName = "equivalentClass"	No comments
owl:equivalentClass	association.isFunctional = "false"	No comments
owl:equivalentClass	association.isNavigable = "true"	No comments
owl:equivalentClass	association.isReflexive="true"	No comments
owl:equivalentClass	association.isSymmetric="true"	No comments
owl:equivalentClass	association.isTransitive="true"	No comments
owl:equivalentClass	association.reverseName="equivalentClass"	No comments
owl:equivalentProperty	association	No comments
owl:equivalentProperty	association.id = "equivalentProperty"	No comments
owl:equivalentProperty	association.forwardName = "equivalentProperty"	No comments
owl:equivalentProperty	association.isFunctional = "false"	No comments
owl:equivalentProperty	association.isNavigable = "true"	No comments
owl:equivalentProperty	association.isReflexive="true"	No comments
owl:equivalentProperty	association.isSymmetric="true"	No comments
owl:equivalentProperty	association.isTransitive="true"	No comments
owl:equivalentProperty	association.reverseName="equivalentProperty"	No comments
owl:sameAs	association	No comments
owl:sameAs	association.id = "sameAs"	No comments
owl:sameAs	association.forwardName = "sameAs"	No comments
owl:sameAs	association.isFunctional = "false"	No comments
owl:sameAs	association.isNavigable = "true"	No comments
owl:sameAs	association.isReflexive="true"	No comments
owl:sameAs	association.isSymmetric="true"	No comments
owl:sameAs	association.isTransitive="true"	No comments
owl:sameAs	association.reverseName="sameAs"	No comments
differentFrom	association	No comments
differentFrom	association.id = "differentFrom"	No comments
differentFrom	association.forwardName = "differentFrom"	No comments
differentFrom	association.isFunctional = "false"	No comments
differentFrom	association.isNavigable = "true"	No comments
differentFrom	association.isReflexive="true"	No comments
differentFrom	association.isSymmetric="true"	No comments
differentFrom	association.isTransitive="true"	No comments
differentFrom	association.reverseName= "differentFrom"	No comments
owl:AllDifferent	association	No comments
owl:AllDifferent	association.id = "AllDifferent"	No comments
owl:AllDifferent	association.forwardName = "AllDifferent"	No comments
owl:AllDifferent	association.isFunctional = "false"	No comments
owl:AllDifferent	association.isNavigable = "true"	No comments
owl:AllDifferent	association.isReflexive="true"	No comments
owl:AllDifferent	association.isSymmetric="true"	No comments
owl:AllDifferent	association.isTransitive="true"	No comments
owl:AllDifferent	association.reverseName= "AllDifferent"	No comments

OWL Element OWL: Property Characteristics	LexEVS	Comments
owl:inverseOf	association	No comments
owl:inverseOf	association.id = "inverseOf"	No comments
owl:inverseOf	association.forwardName = "inverseOf"	No comments
owl:inverseOf	association.isFunctional = "false"	No comments
owl:inverseOf	association.isNavigable = "true"	No comments
owl:inverseOf	association.isReflexive="true"	No comments
owl:inverseOf	association.isSymmetric="true"	No comments
owl:inverseOf	association.isTransitive="true"	No comments
owl:inverseOf	association.reverseName="inverseOf"	No comments
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 Element OWL: Property Restrictions	LexEVS	Comments
owl:Restriction	concept	Create an anonymous concept for the restriction
owl:Restriction	concept.id	System generated
owl:Restriction	concept.isActive = true	No comments
owl:Restriction	concept.isAnonymous = true	Hardcoded "True"
owl:onProperty	association.id	No comments
owl: allValuesFrom	concept.entityDescription	String of allValuesFrom values
owl: allValuesFrom
owl:cardinality	concept.entityDescription
	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl: allValuesFrom	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl: allValuesFrom	concept.presentation.isPreferred = true	Hardcoded "true"
owl: allValuesFrom	concept.presentation.text	String of cardinality Values allValuesFrom values
owl: allValuesFrom	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl: allValuesFrom	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl: allValuesFrom	concept.conceptProperty.text = "owl:intersectionOfunionOf"

owl: disjointWith someValuesFrom	association	association.id = "disjointWith"
OWL: Annotation Property
rdfs:label	Presentation
concept.entityDescription	String of someValuesFrom values
owl: someValuesFrom	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl: someValuesFrom	concept.presentation.propertyName = "textualPresentation"	Hardcoded "textualPresentation"
owl: someValuesFrom	concept.presentation.isPreferred = true	Hardcoded "true"
owl: someValuesFrom	concept.presentation.text	Value of rdfs:label

rdfs:comment	Comment
String of someValuesFrom values
owl: someValuesFrom	concept.conceptProperty		concept.comment.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl: someValuesFrom	concept.commentconceptProperty.propertyName = "comment" type	Hardcoded "commenttype"
owl: someValuesFrom	concept.presentationconceptProperty.text	Value of rdfs:comment

rdfs:seeAlso	conceptProperty
rdfs:isDefinedBy	conceptProperty
OWL: Versioning
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"




DeprecatedClass	Concept attribute setIsActive = false	Not Mapped
DeprecatedProperty	Not Mapped

OWL Mapping - NCI OWL

OWL Element	LexGrid	Comments
= "owl:intersectionOf"	No comments
owl:intersectionOf	concept.entityDescription	String of intersectionOf values (ie. Pizza and not VegetarianPizza)
owl:intersectionOf	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:intersectionOf	concept.presentation.isPreferred = true	Hardcoded "true"
owl:intersectionOf	concept.presentation.text	String of intersectionOf values (ie. Pizza and not VegetarianPizza)
owl:intersectionOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:intersectionOf	concept.conceptProperty.text = "owl:intersectionOf"	No comments
UnionOf	concept.conceptProperty.text = "owl:unionOf"	No comments
owl:complementOf	association	association.id = "subClassOf"
owl:oneOf	concept.entityDescription	String of oneOf values
owl:oneOf	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:oneOf	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:oneOf	concept.presentation.isPreferred = true	Hardcoded "true"
owl:oneOf	concept.presentation.text	String of oneOf values
owl:oneOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:oneOf	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:oneOf	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:hasValue	associationQualification.nameAndValueList.content	No comments
owl:minCardinality	concept.entityDescription	String of minCardinality Values (ie. (hasTopping min 3) and Pizza)
owl:minCardinality	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:minCardinality	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:minCardinality	concept.presentation.isPreferred = true	Hardcoded "true"
owl:minCardinality	concept.presentation.text	String of minCardinality Value (ie. (hasTopping min 3) and Pizza)
owl:minCardinality	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:minCardinality	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:minCardinality	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:maxCardinality	concept.entityDescription	String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)
owl:maxCardinality	concept.presentation.propertyId	Generated value for property textual presentation
OWL Mapping - NCI OWL
OWL: RDF Schema Features
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
owl:maxCardinality	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:maxCardinality	concept.presentation.isPreferred = true	Hardcoded "true"
owl:maxCardinality	concept.presentation.text	String of maxCardinality Values (ie. (hasTopping max 2) and Pizza)
owl:maxCardinality	concept.conceptProperty		concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:maxCardinality	concept.presentationconceptProperty.propertyName = type	Hardcoded "NCI_Preferred_Termtype"
rdfs owl:label maxCardinality	concept.presentationconceptProperty.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
= "owl:intersectionOf"	No comments
owl:maxCardinality	String of cardinality Values	No comments
owl:cardinality	concept.entityDescription	No comments
owl:cardinality	concept.presentation.propertyId	Generated value for property textual presentation		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"
owl:cardinality	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:cardinality	concept.presentation.isPreferred = true	Hardcoded "true"
owl:cardinality	concept.presentation.text	String of cardinality Values
owl:cardinality	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:cardinality	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:cardinality	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:disjointWith	association	association.id = "disjointWith"

OWL Element OWL: Annotation Property	LexEVS	Comments
rdfs:label	Presentation	No comments
rdfs:label	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
rdfs:label	concept.presentation.propertyName = "textualPresentation"	Hardcoded "textualPresentation"
rdfs:label	concept.presentation.isPreferred = true	Hardcoded "true"
rdfs:label	concept.presentation.text	Value of rdfs:label
rdfs:comment	Comment	No comments
rdfs:label	concept.comment.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
rdfs:label	concept.comment.propertyName = "comment"	Hardcoded "comment"
rdfs:label	concept.presentation.text	Value of rdfs:comment
rdfs:seeAlso	conceptProperty	No comments
rdfs:isDefinedBy	conceptProperty	No comments

OWL Element OWL: Versioning	LexEVS	Comments
owl:versionInfo	codingScheme.representsVersion	No comments
priorVersion	None	Not mapped
backwardCompatibleWith	None	Not Mapped
owl:incompatibleWith	association	No comments
owl:incompatibleWith	association.id = "incompatibleWith"	No comments
owl:incompatibleWith	association.forwardName = "incompatibleWith"	No comments
owl:incompatibleWith	association.isFunctional = "false"	No comments
owl:incompatibleWith	association.isNavigable = "true"	No comments
owl:incompatibleWith	association.isReflexive= Hard coded as "true"	No comments
owl:incompatibleWith	association.isSymmetric="true"	No comments
owl:incompatibleWith	association.isTransitive="true"	No comments
owl:incompatibleWith	association.reverseName="incompatibleWith"	No comments
DeprecatedClass	Concept attribute setIsActive = false	Not mapped
DeprecatedProperty	None	Not mapped

OWL Mapping - NCI OWL

OWL Element OWL: RDF Schema Features	LexGrid	Comments
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"
rdfs:label	None	Hardcoded "40010"
rdfs:label	None	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	No comments
dc:rights	codingScheme.copyright	Read from hardcoded "Terms.txt" file.
rdfs:comment	codingScheme.entityDescription	No comments
rdfs:comment	codingScheme.isNative	Hardcoded "true"
owl:Class (Thing, Nothing)	concept	No comments
code	concept.id
code	concept.isActive	Hard coded as "true" unless class "owl:DeprecatedClass", then 'false'
code	concept.isAnonymous	No comments
rsfs:label	concept.entityDescription	No comments
rdf:comment	concept.comment	No comments
rdf:comment	conceptProperty	Indicate whether the concept is primative (has no equavalent classes)
rdf:comment	concept.conceptProperty.propertyName	Hard coded as "primitive"
rdf:comment	concept.conceptProperty.text	"true"
rdf:comment	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
rdf:comment	presentation	Provide default presentation to match concept entity description if not provided as property
rdf:comment
	Hard coded as "false"
	Hard coded as "false"
	Hard coded as "false"



rdf:Property (ObjectProperty)	association	An association between two classes (hasDomain, hasRange)


rdfs:subPropertyOf	Not Mapped


OWL (In)Equality

owl:equivalentClass	association	Association for equivalent class.
	association.id = "equivalentClass"
	association.forwardName = "equivalentClass"
	association.reverseName = "equivalentClass"
	association.isNavigable = "true"	Hard coded as "true"
	Hard coded as "true"
	Hard coded as "true"
	Hard coded as "true"

OWL: Property Characteristics
owl:inverseOf	association
	association.id = "inverseOf"
	association.forwardName = "inverseOf"
	association.isFunctional = "false"
	association.isNavigable = "true"





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: Property Restrictions
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.
rdf:comment	concept.presentation.propertyName	Hardcoded "textualPresentationNCI_Preferred_Term"
rdfs:label	concept.presentation.isPreferred = true	Hardcoded "true"
	concept.presentation.text	Set to concept.entityDescription
.text	concept.entityDescription
rdf:comment	conceptProperty	Property with designated concept name label (per NCI requirements and used in codeToName/nameToCode lookup).
rdf:comment	concept.conceptProperty.propertyName	Hard coded as "CONCEPT_NAME"
rdfs:label	concept.conceptProperty.text	concept.entityDescription
rdfs:label	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

OWL: Annotation Property
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: Versioning
owl:versionInfo	codingScheme.representsVersion
priorVersion	Not Mapped
backwardCompatibleWith	Not Mapped
DeprecatedClass	Not Mapped
DeprecatedProperty	Not Mapped

Legacy Complex Prop Mapping

Legacy Complex Properties Mapping
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?

UMLS SemNet Mapping

RRF File Name	RRF Column Name	RRF Definition	NCI Meta only
UMLS SemNet Mapping
<big>Coding Scheme</big>
	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
<big>Concepts</big>
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.

<big>Relations</big>
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"

UMLS Mapping

RRF File Name	RRF Column Name	RRF Definition	NCI Meta only	LexGrid Model Element	comments
UMLS Mapping
<big>Coding Scheme</big>
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/^{Image Removed} ."
	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"
<big>Concepts</big>
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.
<big>Relations</big>
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.

SNOMED UMLS Mapping

RRF File Name	RRF Column Name	RRF Definition	LexGrid Model Element
SNOMED UMLS Mapping
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
	Hard coded to "en"	codingScheme.defaultLanguage
MRSAT.RRF	ATV	concept.presentation.language	Unique to snomed.

OBO Mapping

OBO Class	OBO Entity	LexGrid Model Element	Notes
OBO Mapping
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
	CodedEntry.presentation'textualPresentation'.text
	CodedEntry.presentation'textualPresentation'.isPreferred = true
Stanza	alt_id
		CodedEntry.property'alt_id'.propertyId
	CodedEntry.property'alt_id'.text
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
Stanza	subset	propertysubset tag	See subsetdef
Stanza	syonym	presentation'textualPresentation'.text
Stanza	synonym.scope	presentation'textualPresentation'.degreeOfFidelity
Stanza	synonym.type	presentation'textualPresentation'.representationalForm
Stanza	synonym.dbxref	(see dbxref)
Stanza	exact_synonym	See synonym
Stanza	narrow_synonym	See synonym
Stanza	broad_synonym	See synonym
Stanza	xref	associations.'mapsTo'
Stanza	xref_analog	See synonym
Stanza	xref_unk

Stanza	is_a	associations.'hasSubtype'	Reverse of the source and target.
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.

typeDef Stanza	domain	associations.'has_domain'
typeDef Stanza	range	associations.'has_range'
typeDef Stanza	is_cyclic	property'is_cyclic'
typeDef Stanza	is_reflexive	property'is_reflexive'
	association.isReflexive
typeDef Stanza	is_symmetric	property'is_symmetric'
	association.isSymmetric
typeDef Stanza	is_transitive	property'is_transitive'
	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
instance stanza	instance_of	association'has_instance'
instance stanza	data type properties go in Coded Entry property section

HL7 RIM Mapping

HL7 Table	HL7 Column	LexGrid Model Element	Notes
HL7 RIM Mapping
	Intentionally Not mapped	Outstanding issues
Model	<modelID>	<codingSchemeName>
	<name>	<formalName>
	<registeredName>	http://www.hl7.org/Library/data-model/RIM^{Image Removed} *1
	<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.
	codeSystemType	commonTypes::Properties	This is an HL7 specific code system property to distinguish internal vs external code systems. Moved to metadata file.
	codeSystemName	concept.conceptCode	Moved to metadata file.
	codeSystemName	concept.presentation'textualPresentation'.text
	fullName	codingScheme.formalName
	description	codingScheme.entityDescription	Moved to metadata file.
	releaseId	codingScheme.representsVersion	Moved to metadata file.
	copyrightNotice	codingScheme.copyright	Moved to metadata file.
	literal('en')	codingScheme.defaultLanguage	Moved to metadata file.

VCS_concept_code_xref	internalId
	Concept Code	concept.conceptCode	RIM db column conceptCode2
	Case Difference	commonTypes::Properties	Basically a proprty to outline whether there are case differences in the Concept Code or not (mainly used, but not restricted tor units of measure)	RIM db column codeInstance
	Status	RIM db column conceptStatus
	concept.conceptStatus	Not used by HL7. A = isActive, R = retired

VCS_concept_designation	internalId	foreign key
	designation	concept.presentation'textualPresentation'.text
	designationSeq
	language	concept.presentation'textualPresentation'.language	Can be omitted if language = default language
	preferredForLanguage	concept.presentation'textualPresentation'.isPreferred

VCS_concept_description	internalId	with(codeSystemderef(internalId).conceptderef(internalId)).definition	foreign key
	description	concept.presentation'textualPresentation'.text
	language	concept.presentation'textualPresentation'.language
	literal('true')	concept.presentation'textualPresentation'.isPreferred
	uniqueId()	concept.presentation'textualPresentation'.propertyId
	literal('definition')	concept.presentation'textualPresentation'.property


VCS_concept_property	internalId	foreign key
	propertyCode	concept.property.property
	propertySeq	Currently not used by HL7
	propartyValue	concept.property.text
	language	concept.property.language

VCS_concept_relationship	relationCode	association.association
	sourceInternalId	associationInstance.sourceConcept
	targetInternalId	associationTarget.targetConcept

Model	modelID	systemRelease.releaseId
	name	service.service
	versionNumber	service.version
	lastModifiedDate	systemRelease.releaseDate
	developingOrganization	systemRelease.releaseAgency
	committeeID
	description	systemRelease.entityDescription
	concat('urn:oid:2.16.840.1.113883:',systemRelease.releaseId)	systemRelease.releaseURN
	literal('true')	systemRelease.isLatest	Also have to set the prior release isLatest to false
	preceding-sibling/releaseOrder + 1	systemRelease.releaseOrder

Model	modelID	commonTypes::Properties
(Special mapping for NCI)	name	codingScheme.localName
	versionNumber	codingScheme.representsVersion
	lastModifiedDate	commonTypes::Properties
	developingOrganization	commonTypes::Properties
	committeeID
	description	codingScheme.entityDescription
	concat('urn:oid:2.16.840.1.113883:',systemRelease.releaseId)	codingScheme.registeredName
	literal('true')	commonTypes::Properties	Also have to set the prior release isLatest to false
	preceding-sibling/releaseOrder + 1	commonTypes::Properties


RIM_vocabulary_domain	vocDomain	codingscheme"VocabularyDomain".concept.conceptCode	Vocabulary Domains are carried in a code system of vocabulary domains.
	codingscheme"VocabularyDomain".concept.presentation"textualPresentation".text	preferredPresentation
	description	codingscheme"VocabularyDomain".concept.definition.text	preferredDefinition for code
	restrictsDomain	codingscheme"VocabularyDomain".association"hasSubtype".sourceConcept	Should this be hasSubtype or something else?
	codingscheme"VocabularyDomain".association"hasSubtype".targetconcept = vocDomain

VOC_code_reference	usedToBuildValueSet
	referencesConceptCode	...valueDomainEntry/conceptCode

1) id is synthesized

2) Only stored if isHeadCode h1. false or includeReferencedCode true |

rdfs:label	relation	Top-level container for associations (non-inheritable, non-defining relationships between concepts.
rdfs:label	relations.dc	Hard coded as "associations"
rdfs:label	relations.isNative	Hard coded as "true"
rdfs:label	relations.entityDescription	Hard coded as "Non-inheritable non-defining relations."
rdfs:label	relation	Top-level container for roles (inheritable relationships)
rdfs:label	relations.dc	Hard coded as "roles"
rdfs:label	relations.isNative	Hard coded as "true"
rdfs:label	relations.entityDescription	Hard coded as "Inheritable/defining relations."
rdfs:subClassOf	association	Association for subtype hierarchy.
rdfs:subClassOf	association.id = "hasSubtype"	No comments
rdfs:subClassOf	association.forwardName = "hasSubtype"	No comments
rdfs:subClassOf	association.reverseName = "isA"	No comments
rdfs:subClassOf	association.isNavigable = "true"	Hard coded as "true"
rdfs:subClassOf	association.isReflexive="true"	Hard coded as "true"
rdfs:subClassOf	association.isSymmetric="false"	Hard coded as "false"
rdfs:subClassOf	association.isTransitive="true"	Hard coded as "true"
hasElement	association	Association used to register component classes as elements of anonymous node representations.
hasElement	association.id = "hasElement"	No comments
hasElement	association.forwardName = "hasElement"	No comments
hasElement	association.isNavigable = "true"	Hard coded as "true"
hasElement	association.isSymmetric="false"	Hard coded as "false"
hasElement	association.isTransitive="true"	Hard coded as "true"
rdfs:domain	association	Association for role_has_domain relations
rdfs:domain	association.id = "Role_Has_Domain"	No comments
rdfs:domain	association.forwardName = "roleHasDomain"	No comments
rdfs:domain	association.reverseName = "kindIsDomainOf"	No comments
rdfs:domain	association.isNavigable = "true"	Hard coded as "true"
rdfs:domain	association.isReflexive="false"	Hard coded as "false"
rdfs:domain	association.isSymmetric="false"	Hard coded as "false"
rdfs:domain	association.isTransitive="true"	Hard coded as "true"
rdfs:range	association	Association for range relations
rdfs:range	association.id = "Role_Has_Range"	No comments
rdfs:range	association.forwardName = "roleHasRange"	No comments
rdfs:range	association.reverseName = "kindIsRangeOf"	No comments
rdfs:range	association.isNavigable = "true"	Hard coded as "true"
rdfs:range	association.isReflexive="false"	Hard coded as "false"
rdfs:range	association.isSymmetric="false"	Hard coded as "false"
rdfs:range	association.isTransitive="false"	Hard coded as "false"
rdf:Property (ObjectProperty)	association	An association between two classes (hasDomain, hasRange)
rdfs:subPropertyOf	None	Not mapped

OWL Element OWL (In)Equality	LexGrid	Comments
owl:equivalentClass	association	Association for equivalent class.
owl:equivalentClass	association.id = "equivalentClass"	No comments
owl:equivalentClass	association.forwardName = "equivalentClass"	No comments
owl:equivalentClass	association.reverseName = "equivalentClass"	No comments
owl:equivalentClass	association.isNavigable = "true"	Hard coded as "true"
owl:equivalentClass	association.isReflexive="true"	Hard coded as "true"
owl:equivalentClass	association.isSymmetric="true"	Hard coded as "true"
owl:equivalentClass	association.isTransitive="true"	Hard coded as "true"

OWL Element OWL: Property Characteristics	LexGrid	Comments
owl:inverseOf	association	No comments
owl:inverseOf	association.id = "inverseOf"	No comments
owl:inverseOf	association.forwardName = "inverseOf"	No comments
owl:inverseOf	association.isFunctional = "false"	No comments
owl:inverseOf	association.isNavigable = "true"	No comments
owl:inverseOf	association.isReflexive="true"	No comments
owl:inverseOf	association.isSymmetric="true"	No comments
owl:inverseOf	association.isTransitive="true"	No comments
owl:inverseOf	association.reverseName="inverseOf"	No comments
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 Element OWL: Property Restrictions	LexGrid	Comments
owl:Restriction	concept	Anonymous concept created.
owl:Restriction	concept.entityDescription = "RestrictionOn: " + association name	Concatination of "Restriction On: " and assocation name
owl:Restriction	concept.isAnonymous = true	No comments
owl: allValuesFrom	associationQualification.association.Qualifier = "AllValuesFrom"	No comments
owl: someValuesFrom	associationQualification.association.Qualifier = "someValuesFrom"	No comments
owl:intersectionOf	concept.entityDescription	Concatination of "Restriction On: " and assocation name
owl:intersectionOf	concept.isAnonymous = true	No comments
owl:intersectionOf	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:intersectionOf	concept.presentation.isPreferred = true	Hardcoded "true"
owl:intersectionOf	concept.presentation.text	Set to concept.entityDescription
owl:intersectionOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:intersectionOf	concept.conceptProperty.text = "owl:intersectionOf"	No comments
owl:unionOf	concept.entityDescription	Concatination of "Restriction On: " and assocation name
owl:intersectionOf	concept.isAnonymous = true	No comments
owl:intersectionOf	concept.presentation.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.presentation.propertyName	Hardcoded "textualPresentation"
owl:intersectionOf	concept.presentation.isPreferred = true	Hardcoded "true"
owl:intersectionOf	concept.presentation.text	Set to concept.entityDescription
owl:intersectionOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:intersectionOf	concept.conceptProperty.propertyName = type	Hardcoded "type"
owl:intersectionOf	concept.conceptProperty.text = "owl:unionOf"	No comments
owl:oneOf	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
owl:oneOf	concept.conceptProperty.propertyName = "owl:oneOf"	Hardcoded "owl:oneOf"
owl:oneOf	concept.conceptProperty.text	String of oneOf values

OWL: Annotation Property	LexGrid	Comments
rdfs:comment	Comment	No comments
rdfs:comment	concept.comment.propertyId	Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value.
rdfs:comment	concept.comment.propertyName = "comment"	Hardcoded "comment"
rdfs:comment	concept.presentation.text	Value of rdfs:comment
rdfs:comment		No comments
rdfs:seeAlso	conceptProperty	No comments
rdfs:isDefinedBy	conceptProperty	No comments

OWL Element OWL: Versioning	LexGrid	Comments
owl:versionInfo	codingScheme.representsVersion	No comments
priorVersion	None	Not mapped
backwardCompatibleWith	None	Not mapped
DeprecatedClass	None	Not mapped
DeprecatedProperty	None	Not mapped

Legacy Complex Prop Mapping

Legacy Complex Properties Mapping

Tag	Presentation	Source	Representational Form	Qualifier	Model Element	Value Column Name	Model Element
go-term	x	NA	NA	NA	None	propertyValue	None
go-id	NA	NA	NA	x	propertyQualifierId	val1	PropertyQualifier attribute content?
go-source	NA	NA	NA	x	propertyQualifierId	val1	PropertyQualifier attribute content?
source-date	NA	NA	NA	x	propertyQualifierId	val1	PropertyQualifier attribute content?
term-name	x	NA	NA	NA	None	propertyValue	None
term-group	NA	NA	x	NA	None	representationalForm	property attribute
term-source	NA	x	NA	NA	None	attributeValue	source
def-source	NA	x	NA	NA	None	attributeValue	source
def-definition	x	NA	NA	NA	None	propertyValue	definition
Definition_Review_Date	NA	NA	NA	x	propertyQualifierId	val1	PropertyQualifier attribute content?
Definition_Reviewer_Name	NA	NA	NA	x	propertyQualifierId	val1	PropertyQualifier attribute content?

UMLS SemNet Mapping

Coding Scheme RRF File Name	Coding Scheme RRF Column Name	Coding Scheme RRF Definition	Coding Scheme NCI Meta Only	Coding Scheme LexGrid Model Element	Coding Scheme Comments
None	None	None	NA	codingScheme.representsVersion	No comments
None	None	None	NA	codingScheme.codingScheme	Hard coded in java file as "UMLS_SemNet"
None	None	None	NA	codingScheme.formalName	Hard coded in java file as "UMLS Semantic Network"
None	None	None	NA	codingScheme.defaultLanguage	Hard coded in java file as "en"
None	None	None	NA	codingScheme.approxNumConcepts	Hard coded in java file as
None	None	None	NA	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	None	None	NA	codingScheme.copyright	Read from license.txt file or hard coded reference in java file
license.txt	None	None	NA	codingScheme.registeredName	Hard coded in java file as "urn:lsid:nlm.nih.gov:semnet"
license.txt	None	None	NA	codingScheme.concepts.dc	Hard coded in java file as "concepts"
license.txt	None	None	NA	codingScheme.relations.dc	Hard coded in java file as "relations"
license.txt	None	None	NA	codingScheme.mappings.dc	Hard coded in java file as "mappings"
license.txt	None	None	NA	None	No comments
license.txt	None	None	NA	codingScheme.localNameList	No comments
license.txt	None	None	NA	codingScheme.localNameList.	Hard coded in java file as "UMLS_SemNet"
license.txt	None	None	NA	codingScheme.localNameList	No comments
license.txt	None	None	NA	codingScheme.localNameList.	No comments
license.txt	None	None	NA	codingScheme.source	No comments
license.txt	None	None	NA	codingScheme.source.content	No comments
license.txt	None	None	NA	codingScheme.localNameList	No comments
license.txt	None	None	NA	codingScheme.localNameList.	No comments
license.txt	None	None	NA	codingScheme.localNameList	No comments
license.txt	None	None	NA	codingScheme.localNameList.	No comments
license.txt	None	None	NA	codingScheme.localNameList	No comments
license.txt	None	None	NA	codingScheme.localNameList.	No comments
license.txt	None	None	NA	codingScheme.localNameList	No comments
license.txt	None	None	NA	codingScheme.localNameList.	No comments
license.txt	None	None	NA	mappings.supportedFormat	No comments
license.txt	None	None	NA	mappings.supportedFormat.localId	Hard coded in java file as "text/plain"
license.txt	None	None	NA	mappings.supportedFormat.urn	Hard coded in java file as "urn:oid:2.16.840.1.113883.6.10:text_plain"
license.txt	None	None	NA	mappings.supportedAssociation	No comments
SRDEF	RL	None	NA	mappings.supportedAssociation.localId	No comments
SRDEF	RL	None	NA	mappings.supportedContext	No comments
SRDEF	RL	None	NA	mappings.supportedSource	No comments
SRDEF	RL	None	NA	mappings.supportedSource.localId	Hard coded in java file as "NLM"
SRDEF	RL	None	NA	mappings.supportedSource.urn	Hard coded in java file as "urn:lsid:nlm.nih.gov"
SRDEF	RL	None	NA	mappings.supportedHierarchy	No comments
SRDEF	RL	None	NA	mappings.supportedHierarchy.localId	Hard coded in java file as "is_a"
SRDEF	RL	None	NA	mappings.supportedHierarchy.isForwardNavigable	Hard coded as "true"
SRDEF	RL	None	NA	mappings.supportedHierarchy.rootCode	Hard coded as "@"
SRDEF	RL	None	NA	mappings.supportedHierarchy.associationList	Hard coded in java file as "hasSubtype"
SRDEF	RL	None	NA	mappings.supportedAssociationQualifier	No comments
SRFLD	COL	None	NA	mappings.supportedProperty	No comments
SRFLD	COL	None	NA	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.
SRFLD	COL	None	NA	mappings.supportedProperty.urn	Hard coded in java file as ""
SRFLD	COL	None	NA	mappings.supportedLanguage	No comments
SRFLD	COL	None	NA	mappings.supportedLanguage.localId	Hard coded in java file as "en"
SRFLD	COL	None	NA	mappings.supportedLanguage.urn	Hard coded in java file as "urn:oid:2.16.840.1.113883.6.84:en"
SRFLD	COL	None	NA	mappings.supportedCodingScheme	No comments
SRFLD	COL	None	NA	mappings.supportedCodingScheme.localId	Hard coded in java file as "UMLS_SemNet"
SRFLD	COL	None	NA	mappings.supportedCodingScheme.urn	Hard coded in java file as "urn:lsid:nlm.nih.gov:semnet"
SRFLD	COL	None	NA	mappings.supportedRepresentationalForm	No comments
SRFLD	COL	None	NA	mappings.supportedConceptStatus	No comments
SRFLD	COL	None	NA	mappings.supportedPropertyLink	No comments
SRFLD	COL	None	NA	mappings.supportedPropertyQualifier	No comments
SRFLD	COL	None	NA	mappings.supportedDataType	No comments

Concepts RRF File Name	Concepts RRF Column Name	Concepts RRF Definition	Concepts NCI Meta Only	Concepts LexGrid Model Element	Concepts Comments
SRDEF	UI	None	NA	concept.id(inherited from Entity)	No comments
SRDEF	STY/RL	None	NA	concept.enitityDescription(inheritance path Entity->versionableAndDescribable)	No comments
SRDEF	STY/RL	None	NA	concept.conceptProperty	No comments
SRDEF	NH	None	NA	concept.conceptProperty.text.content	No comments
SRDEF	NH	None	NA	concept.conceptProperty.format	Hard coded in java file as "text/plain"
SRDEF	NH	None	NA	concept.conceptProperty.propertyName	Hard coded in java file as "NH"
SRDEF	NH	None	NA	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
SRDEF	NH	None	NA	concept.presentation	No comments
SRDEF	NH	None	NA	concept.presentation.propertyName (inherited from Property)	Hard coded in java file as "STY/RL" or "ABR"
SRDEF	NH	None	NA	concept.presentation.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
SRDEF	STY/RL, ABR	None	NA	concept.presentation.text.content	No comments
SRDEF	STY/RL, ABR	None	NA	concept.presentation.format	hard coded in java file as "text/plain"
SRDEF	STY/RL, ABR	None	NA	concept.presentation.isPreferred	hard coded in java file as true.
SRDEF	STY/RL, ABR	None	NA	concept.definition.propertyName (inherited from Property)	Hard coded in java file as "DEF"
SRDEF	STY/RL, ABR	None	NA	concept.definition.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
SRDEF	DEF	None	NA	concept.definition.text.content	No comments
SRDEF	DEF	None	NA	concept.definition.format	Hard coded in java file as "text/plain"
SRDEF	DEF	None	NA	concept.definition.isPreferred	Hard coded in java file as true.
SRDEF	DEF	None	NA	concept.comment	No comments
SRDEF	EX	None	NA	concept.comment.propertyName (inherited from Property)	Hard coded in java file as "EX"
SRDEF	EX	None	NA	concept.comment.text.content	No comments
SRDEF	EX	None	NA	concept.comment.format	hard coded in java file as "text/plain"
SRDEF	EX	None	NA	concept.comment.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
SRDEF	EX	None	NA	concept.instruction	No comments
SRDEF	EX	None	NA	concept.instruction.propertyName (inherited from Property)	Hard coded in java file as "UN"
SRDEF	UN	None	NA	concept.instruction.text.content	No comments
SRDEF	UN	None	NA	concept.instruction.format	hard coded in java file as "text/plain"
SRDEF	UN	None	NA	concept.instruction.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.

Relations RRF File Name	Relations RRF Column Name	Relations RRF Definition	Relations NCI Meta Only	Relations LexGrid Model Element	Relations Comments
SRSTR	RL	None	NA	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
SRSTR	RL	None	NA	association.isTransitive	hard coded to true if the value of RL is "isa"
SRSTR	RL	None	NA	association.forwardName	Reversed when value of RL is "isa"
SRSTR	STY/RL	None	NA	associationInstance.sourceId	Reversed when value of RL is "isa"
SRSTR	STY/RL	None	NA	associationTarget.targetId	No comments
SRDEF	RIN	None	NA	association.reverseName	No comments
SRDEF	DEF	None	NA	association.entityDescription.content (inheritance path for entityDescription is Entity->versionableAndDescribable)	When SRDEF value RT is "RL"
SRSTRE1	UI/STY(first argument)	None	NA	associationInstance.sourceId	Reversed when value of RL is "isa"
SRSTRE1	UI/STY(2nd argument)	None	NA	associationTarget.targetId	Reversed when value of RL is "isa"

UMLS Mapping

Coding Scheme File Name	Coding Scheme RRF Column Name	Coding Scheme RRF Definition	Coding Scheme NCI Meta Only	Coding Scheme LexGrid Model Element	Coding Scheme Comments
MRSAB.RRF	SVER	Release date or version number of a source	NA	codingScheme.representsVersion	No comments
MRSAB.RRF	SSN	Source short name	NA	codingScheme.codingScheme	No comments
MRSAB.RRF	SON	Source Official Name	NA	codingScheme.formalName	No comments
MRSAB.RRF	LAT	Language of Term(s)	NA	codingScheme.defaultLanguage	No comments
MRSAB.RRF	TRF	Term frequency for a source	NA	codingScheme.approxNumConcepts	No comments
MRSAB.RRF	SCIT	Source citation	NA	codingScheme.entityDescription	Inherits entityDescription from versionableAndDescribable
MRSAB.RRF	SCC	Content contact info for a source	NA	codingScheme.copyright	No comments
MRSAB.RRF	SCC	Content contact info for a source	NA	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"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.codingScheme	Hard coded in java file as "NCI MetaThesaurus"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.formalName	Hard coded in java file as "NCI MetaThesaurus"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.defaultLanguage	Hard coded in java file as "ENG"
MRCONSO.RRF	None	None	x	codingScheme.approxNumConcepts	Count of CODE value in MRCONSO.RRF
MRCONSO.RRF	None	None	x	codingScheme.entityDescription	Hard coded in java file as "NCI MetaThesaurus loaded from RRF files."
MRCONSO.RRF	None	None	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/."
MRCONSO.RRF	None	None	NA	codingScheme.localNameList	Hard coded as constant in java file as "localName"
MRSAB.RRF	SON	Source Official Name	NA	codingScheme.localNameList.	No comments
MRSAB.RRF	SON	Source Official Name	NA	codingScheme.localNameList	Hard coded as constant in java file as "localName"
MRSAB.RRF	SON	Source Official Name	NA	codingScheme.localNameList.	Pulled from iso mapping configuration file using method getISOString(RSAB from MRSAB.RRF)
MRSAB.RRF	SON	Source Official Name	NA	codingScheme.source	Hard coded as constant in java file as "source"
MRDOC.RRF	EXPL	Detailed explanation	NA	codingScheme.source.content	String concatenation of "UMLS-" and value of EXPL
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList	Hard coded as constant in java file as "localName"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList.	Hard coded in java file as "NCI Thesaurus"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList	Hard coded as constant in java file as "localName"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList.	Hard coded in java file as "NCI_Thesaurus"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList	Hard coded as constant in java file as "localName"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList.	Hard coded in java file as "10001"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList	Hard coded as constant in java file as "source"
MRDOC.RRF	EXPL	Detailed explanation	x	codingScheme.localNameList.	Hard coded in java file as "RRF Files"
MRDOC.RRF	EXPL	Detailed explanation	NA	mappings.supportedFormat	Hard coded as constant in java file as "Format"
MRDOC.RRF	EXPL	Detailed explanation	NA	mappings.supportedFormat.localId	Hard coded as one of several constants in a java file
MRDOC.RRF	EXPL	Detailed explanation	NA	mappings.supportedAssociation	Hard coded as constant in java file as "Association"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedAssociation.localId	No comments
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedContext	Hard coded as constant in java file as "Context" May not be used in individual RRF load
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedSource	Hard coded as constant in java file as "Source" May not be used in individual RRF load
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedHierarchy	Hard coded as constant in java file as "Hierarchy"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedAssociationQualifier	Hard coded as constant in java file as "AssociationQualifier"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedProperty	Hard coded as constant in java file as "Property"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedLanguage	Hard coded as constant in java file as "Language"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedCodingScheme	Hard coded as constant in java file as "CodingScheme"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedRepresentationalForm	Hard coded as constant in java file as "RepresentationalForm"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedConceptStatus	Hard coded as constant in java file as "ConceptStatus"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedPropertyLink	Hard coded as constant in java file as "PropertyLink"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedPropertyQualifier	Hard coded as constant in java file as "PropertyQualifier"
MRREL.RRF	REL, RELA	Relationship, Relationship attribute	NA	mappings.supportedDataType	Hard coded as constant in java file as "DataType"

Concepts RRF File Name	Concepts RRF Column Name	Concepts RRF Definition	Concepts NCI Meta Only	Concepts LexGrid Model Element	Concepts Comments
MRCONSO.RRF	CODE	Unique Identifier or code for string in source	NA	concept.conceptCode	No comments
MRCONSO.RRF	CUI	Unique identifier for concept	x	concept.conceptCode	No comments
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.isActive	Hardcoded in parameter as true.
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.conceptStatus	Hard coded as constant in java file as "Active"
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.isAnonymous	Hardcoded in parameter as false.
MRCONSO.RRF	STR	String	NA	concept.entityDescription	No comments
MRCONSO.RRF	STR	String	NA	concept.conceptProperty.Format	Hard coded as constant in java file as "text/plain" or null
MRCONSO.RRF	STR	String	NA	concept.conceptProperty.propertyName	May be hard coded as constant in java file as one of several properties.
MRCONSO.RRF	STR	String	NA	concept.conceptProperty.usageContext	No comments
MRCONSO.RRF	STR	String	NA	concept.conceptProperty.propertyId	Generated value for property using "P" concatenated with a steadily incremented numerical value.
MRCONSO.RRF	STR	String	NA	concept.presentation.propertyId	Generated value for property textual presentation using "T" concatenated with a steadily incremented numerical value.
MRCONSO.RRF	STR	String	NA	concept.comment.propertyId	Generated value for property comment using "C" concatenated with a steadily incremented numerical value.
MRCONSO.RRF	STR	String	NA	concept.definition.propertyId	Generated value for property definition using "D" concatenated with a steadily incremented numerical value.
MRCONSO.RRF	STR	String	NA	concept.instruction.propertyId	Generated value for property instruction using "I" concatenated with a steadily incremented numerical value.
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.conceptProperty.text.content.	No comments
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.conceptProperty.propertyId	Generated value for property using "CUI" concatenated with a steadily incremented numerical value.
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.conceptProperty.propertyName	Hard coded as constant in java file as "UMLS_CUI"
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.conceptProperty.propertyType	Hard coded as constant in java file as "property"
MRCONSO.RRF	CUI	Unique identifier for concept	NA	concept.conceptProperty.format	Left as null
MRSTY.RRF	STY	Semantic type	NA	concept.conceptProperty.text.content	No comments
MRSTY.RRF	STY	Semantic type	NA	concept.conceptProperty.propertyId	Generated value for property using "SemType" concatenated with a steadily incremented numerical value.
MRSTY.RRF	STY	Semantic type	NA	concept.conceptProperty.propertyName	Hard coded as constant in java file as "Semantic_Type"
MRSTY.RRF	STY	Semantic type	NA	concept.conceptProperty.propertyType	Hard coded as constant in java file as "property"
MRSTY.RRF	STY	Semantic type	NA	concept.conceptProperty.format	Hard coded as constant in java file as "text/plain"
MRCONSO.RRF	LAT	Language of Term(s)	NA	concept.conceptProperty.language	Logic of code simply selects the first definition in the source as the preferred source
MRCONSO.RRF	TS	Term status	NA	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	NA	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	NA	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	NA	concept.presentation.isPreferred	One or a combination of these RRF values determines whether a presentation is preferred: LAT, TS, STT, ISPREF, RANK.
MRCONSO.RRF	RANK	Termgroup ranking	NA	concept.presentation.isPreferred	No comments
MRDEF.RRF	DEF	Definition	NA	concept.definition.text.content	No comments
MRDEF.RRF	DEF	Definition	NA	concept.definition.isPreferred	Logic of code simply selects the first definition in the source as the preferred source
MRSAT.RRF	ATN	Attribute name	NA	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	NA	concept.conceptProperty.propertyValue	No comments
MRSAT.RRF	ATN	Attribute name	NA	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	NA	concept.conceptProperty.propertyQualifier.content	If the STYPE points to SAUI then the value is loaded as a property qualifier attribute
MRCONSO.RRF	SAB	None	x	concept.conceptProperty.source.content	No comments
MRCONSO.RRF	SAB	None	x	concept.conceptProperty.propertyQualifier.propertyQualifierId	Hard coded as constant in java file as "source-code"
MRCONSO.RRF	CODE	None	x	concept.conceptProperty.propertyQualifier.content	No comments
MRCONSO.RRF	CODE	None	x	concept.conceptProperty.propertyQualifier.propertyQualifierId	hard coded as constant in java file as "AUI"
MRCONSO.RRF	AUI	None	x	concept.conceptProperty.propertyQualifier.content	No comments
MRCONSO.RRF	AUI	None	NA	concept.presentation.representationalForm	When ATN value is EV this presentation will be given a representationalForm of "Abbrev."
MRCONSO.RRF	TTY	Term type in source	NA	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.
MRCONSO.RRF	TTY	Term type in source	NA	concept.conceptProperty.propertyQualifier.propertyQualifierId	Hard coded as "HCD"
MRHIER.RRF	HCD	Source asserted hierarchical number or code for this atom in this context	NA	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.

Relations RRF File Name	RRF Column Name	RRF Definition	NCI Meta Only	LexGrid Model Element	Comments
MRREL.RRF	CUI1	Unique identifier for first concept	NA	None	No comments
MRREL.RRF	AUI1	Unique identifier for first atom	NA	None	No comments
MRCONSO.RRF	CODE	Unique Identifier or code for string in source	NA	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	NA	None	No comments
MRREL.RRF	AUI2	Unique identifier for second atom	NA	None	No comments
MRCONSO.RRF	CODE	Unique Identifier or code for string in source	NA	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	NA	None	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	NA	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	NA	association.id (id inherited from Entity)	UMLS defined associations
MRSAT.RRF	METAUI	Metathesaurus asserted unique identifier	NA	Presence of RUI in MRSAT.RRF METAUI column indicates the association defined in MRREL has an association qualifier. Currently only MedDRA uses these.	No comments
MRSAT.RRF	ATN	None	NA	AssociatedConcept.nameAndValueList.name	No comments
MRSAT.RRF	ATV	None	NA	AssociationQualification.nameAndValueList.content	No comments
MRSAT.RRF	ATV	None	NA	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	None	NA	AssociationQualification.nameAndValueList.content	No comments
MRSAB.RRF	SSN	Source short name	NA	association.codingSchemeId (Inherited from Entity)	No comments
MRREL.RR	REL or RELA	Relationship or Relationship attribute	NA	association.forwardName	unqualified REL or RELA value (inverse_isa remains the same)
MRDOC.RRF	EXPL	Detailed explanation	NA	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".
MRDOC.RRF	EXPL	Detailed explanation	NA	association.inverse	Hard coded as a blank string.
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isAntiReflexive	Hard coded to null
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isAntiSymmetric	Hard coded to null
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isAntiTransitive	Hard coded to null
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isAntiTransitive	Hard coded to null
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isNavigable	Hard coded as Boolean with value true.
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isReflexive	Hard coded to null
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isReverseFunctional	Hard coded to null.
MRDOC.RRF	EXPL	Detailed explanation	NA	association.isSymmetric	Hard coded to null
MRREL.RRF	SAB, REL, RELA	Source abbreviation	NA	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.
MRREL.RRF	SAB, REL, RELA	Source abbreviation	NA	association.isTranslationAssociation	Hard coded to null.
MRREL.RRF	SAB, REL, RELA	Source abbreviation	NA	association.targetCodingScheme	Hard coded to null.
MRREL.RRF	SAB, REL, RELA	Source abbreviation	NA	association.entityDescription.content (inheritance path for entityDescription is Entity->versionableAndDescribable)	Hard coded to: "UMLS-defined relationships"
MRREL.RRF	SAB, REL, RELA	Source abbreviation	NA	relations.dc	If REL, this is hard coded as "UMLS-Relations" if RELA then it is hard coded to "Relations"
MRREL.RRF	REL, RELA	Source abbreviation	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.
MRREL.RRF	REL, RELA	Source abbreviation	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.
MRREL.RRF	REL, RELA	Source abbreviation	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.

SNOMED UMLS Mapping

RRF File Name	RRF Column Name	RRF Definition	LexGrid Model Element	Comments
RSAB.RRF	SVER	Release date or version number of a source	codingScheme.representsVersion	No comments
RSAB.RRF	SSN	Source short name	codingScheme.codingScheme?	No comments
RSAB.RRF	SON	Source Official Name	codingScheme.formalName	No comments
RSAB.RRF	SON	Hard coded to "en"	codingScheme.defaultLanguage	No comments
MRSAT.RRF	ATV	None	concept.presentation.language	Unique to snomed.

OBO Mapping

OBO Class

OBO Entity

LexGrid Model Element

Notes

Document Header

format-version

None

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

None

Not mapped

Document Header

saved-by

None

Ignored but included if contained in the remark entity.

Document Header

auto-generated-by

None

Ignored but included if contained in the remark entity.

Document Header

subsetdef

None

Not mapped

Document Header

import

None

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

Document Header

typeref

None

Deprecated

Document Header

synonymtypedef

None

Not mapped

Document Header

idspace

None

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

Document Header

default-relationship-id-prefix

None

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.

Document Header

default-namespace

codingScheme.defaultLanguage

Hardcoded "en"

Document Header

default-namespace

codingScheme.isNative

Hardcoded "true"

Stanza

CodedEntry.conceptCode

No comments

Stanza

name

CodedEntry.entityDescription

No comments

Stanza

name

No Format
CodedEntry.presentation['textualPresentation'].text

No comments

Stanza

name

No Format
CodedEntry.presentation['textualPresentation'].isPreferred = true

No comments

Stanza

alt_id

None

No comments

Stanza

alt_id

No Format
CodedEntry.property['alt_id'].propertyId

No comments

Stanza

alt_id

No Format
CodedEntry.property['alt_id'].text

No comments

Stanza

is_anonymous

CodedEntry.isAnonymous = true

No comments

Stanza

is_obsolete

CodedEntry.isActive = false

No comments

Stanza

def

CodedEntry.definition

No comments

CodedEntry.definition.isPreferred = true

No comments

Stanza

def.dbxref

See dbxref

Stanza

comment

CodedEntry.comment.text

No comments

Stanza

subset

No Format
property[subset tag]

See subsetdef

Stanza

syonym

No Format
presentation['textualPresentation'].text

No comments

Stanza

synonym.scope

No Format
presentation['textualPresentation'].degreeOfFidelity

No comments

Stanza

synonym.type

No Format
presentation['textualPresentation'].representationalForm

No comment

Stanza

synonym.dbxref

See dbxre

Stanza

exact_synonym

See synonym

Stanza

narrow_synonym

See synonym

Stanza

broad_synonym

See synonym

Stanza

xref

No Format
associations.['mapsTo']

No comment

Stanza

xref_analog

See synonym

Stanza

xref_unk

None

No comments

Stanza

is_a

No Format
associations.['hasSubtype']

Reverse of the source and target.

Stanza

is_a.namespace

None

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 sectio.

Stanza

intersection_of

None

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

Stanza

union_of

None

Same as OWL

Stanza

disjoint_from

None

Same as OWL

Stanza

relationship

associations.

No comments

Stanza

relationship.not_necessary

associations..associationQualifier

No comments

Stanza

relationship.inverse_necessary

associations..associationQualifier

No comments

Stanza

relationship.namespace

None

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

Stanza

relationship.derived

associations..associationQualifier

No comments

Stanza

relationship.cardinality

associations..associationQualifier

No comments

Stanza

relationship.maxCardinality

associations..associationQualifier

No comments

Stanza

relationship.minCardinality

associations..associationQualifier

No comments

Stanza

is_obsolete

codedEntry.isActive = false

No comments

Stanza

replaced_by

None

No comment

Stanza

consider

None

Not mapped

Stanza

use_term

None

Deprecated

dbxref

dbxref name

CodedEntry..source

No comments

dbxref

supportedSource

None

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

None

Not mapped

dbxref

trailing modifiers

None

Not mapped

typeDef Stanza

domain

No Format
associations.['has_domain']

No comments

typeDef Stanza

range

No Format
associations.['has_range']

No comments

typeDef Stanza

is_cyclic

No Format
property['is_cyclic']

No comment

typeDef Stanza

is_reflexive

No Format
property['is_reflexive']

No comments

association.isReflexive

No comments

typeDef Stanza

is_symmetric

No Format
property['is_symmetric']

No comments

association.isSymmetric

No comments

typeDef Stanza

is_transitive

No Format
property['is_transitive']

No comments

association.isTransitive

No comments.

typeDef Stanza

inverse_of

association.inverse

No comments

instance stanza

Same rules as general stanza

instance stanza

name

same rules as general stanza

Same rules as general stanza

instance stanza

instance_of

No Format
association['has_instance']

No comments

instance stanza

data type properties go in Coded Entry property section

None

No comments

HL7 RIM Mapping

HL7 Table

HL7 Column

LexGrid Model Element

Notes

Highlight

color	gray

Intentionally Not Mapped

Highlight
Outstanding Issues

Model

No notes

None

Model

<name>

No notes

None

Model

<name>

http://www.hl7.org/Library/data-model/RIM

None

Model

<name>

en*

None

Model

No notes

None

Model

None

Model

Result of count on concept bearing table?

None

Model

MISSING

None

Model

MISSING

None

Model

MISSING

None

Model

No notes

None

Model

MISSING

None

VCS_code_system

codeSystemId

codingScheme.registeredName

Moved to metadata file.

None

VCS_code_system

codeSystemType

commonTypes::Properties

This is an HL7 specific code system property to distinguish internal vs external code systems. Moved to metadata file.

None

VCS_code_system

codeSystemName

concept.conceptCode

Moved to metadata file.

None

VCS_code_system

codeSystemName

Code Block
concept.presentation['textualPresentation'].text

No Notes

None

VCS_code_system

fullName

codingScheme.formalName

No notes

None

VCS_code_system

description

codingScheme.entityDescription

Moved to metadata file.

None

VCS_code_system

releaseId

codingScheme.representsVersion

Moved to metadata file.

None

VCS_code_system

copyrightNotice

codingScheme.copyright

Moved to metadata file.

None

VCS_code_system

literal('en')

codingScheme.defaultLanguage

Moved to metadata file.

None

VCS_concept_code_xref

internalId

None

No notes

None

VCS_code_system

Concept Code

concept.conceptCode

No notes

RIM db column conceptCode2

None

VCS_code_system

Case Difference

commonTypes::Properties

Basically a property to outline whether there are case differences in the Concept Code or not (mainly used, but not restricted tor units of measure)

RIM db column codeInstance

None

VCS_code_system

Status

concept.isActive=(conceptStatus=='A'?)

No notes

RIM db column conceptStatus

None

VCS_code_system

Status

concept.conceptStatus

Not used by HL7. A = isActive, R = retired

None

VCS_concept_designation

internalId

Highlight

color	gray

None

foreign key

None

VCS_concept_designation

designation

Code Block
concept.presentation'textualPresentation'].text

No notes

None

designationSeq

Highlight

color	gray

None

No notes

None

VCS_concept_designation

language

Code Block
concept.presentation['textualPresentation'].language

Can be omitted if language = default language

None

VCS_concept_designation

preferredForLanguage

Code Block
concept.presentation['textualPresentation'].isPreferred

No notes

None

VCS_concept_description

internalId

Highlight

color	gray

with(codeSystem[deref(internalId)].concept[deref(internalId)]).definition

foreign key

None

VCS_concept_description

description

Code Block
concept.presentation['textualPresentation'].text

No notes

None

VCS_concept_description

language

Code Block
concept.presentation['textualPresentation'].language

No notes

None

VCS_concept_description

literal('true')

Code Block
concept.presentation['textualPresentation'].isPreferred

No notes

None

VCS_concept_description

uniqueId()

Code Block
concept.presentation['textualPresentation'].propertyId

No notes

None

VCS_concept_description

literal('definition')

Code Block
concept.presentation['textualPresentation'].property

No notes

None

VCS_concept_property

internalId

Highlight

color	gray

None

No notes

foreign key

None

VCS_concept_property

propertyCode

concept.property.property

No notes

None

VCS_concept_property

propertySeq

Highlight

color	gray

None

Currently not used by HL7

None

VCS_concept_property

propartyValue

concept.property.text

No notes

None

VCS_concept_property

language

concept.property.language

No notes

None

VCS_concept_relationship

relationCode

association.association

No notes

None

VCS_concept_relationship

sourceInternalId

associationInstance.sourceConcept

No notes

None

VCS_concept_relationship

targetInternalId

associationTarget.targetConcept

No notes

None

Model

modelID

systemRelease.releaseId

No notes

None

Model

name

service.service

No notes

None

Model

versionNumber

service.version

No notes

None

Model

lastModifiedDate

systemRelease.releaseDate

No notes

None

Model

developingOrganization

systemRelease.releaseAgency

No notes

None

Model

committeeID

Highlight

color	gray

None

No notes

None

Model

description

systemRelease.entityDescription

No notes

None

Model

concat('urn:oid:2.16.840.1.113883:',
systemRelease.releaseId)

systemRelease.releaseURN

No notes

None

Model

literal('true')

systemRelease.isLatest

Also have to set the prior release isLatest to false

None

Model

preceding-sibling/releaseOrder + 1

systemRelease.releaseOrder

No notes

None

Model

modelID

commonTypes::Properties

No notes

None

(Special mapping for NCI)

name

codingScheme.localName

No notes

None

(Special mapping for NCI)

versionNumber

codingScheme.representsVersion

No notes

None

(Special mapping for NCI)

lastModifiedDate

commonTypes::Properties

No notes

None

(Special mapping for NCI)

developingOrganization

commonTypes::Properties

No notes

None

(Special mapping for NCI)

committeeID

Highlight

color	gray

None

No notes

None

(Special mapping for NCI)

description

codingScheme.entityDescription

No notes

None

(Special mapping for NCI)

concat('urn:oid:2.16.840.1.113883:',
systemRelease.releaseId)

codingScheme.registeredName

No notes

None

(Special mapping for NCI)

literal('true')

commonTypes::Properties

Also have to set the prior release isLatest to false

None

(Special mapping for NCI)

preceding-sibling/releaseOrder + 1

commonTypes::Properties

No notes

None

RIM_vocabulary_domain

vocDomain

Code Block
codingscheme["VocabularyDomain"].concept.conceptCode

Vocabulary Domains are carried in a code system of vocabulary domains.

None

RIM_vocabulary_domain

None

Code Block
codingscheme["VocabularyDomain"].concept.presentation ["textualPresentation"].text

preferredPresentation

None

RIM_vocabulary_domain

description

Code Block
codingscheme["VocabularyDomain"].concept.definition.text

preferredDefinition for code

None

RIM_vocabulary_domain

restrictsDomain

Highlight

color	yellow

Code Block
codingscheme["VocabularyDomain"].association ["hasSubtype"].sourceConcept

Should this be hasSubtype or something else?

None

RIM_vocabulary_domain

None

Code Block
codingscheme["VocabularyDomain"].association["hasSubtype"]. targetconcept = vocDomain

No notes

None

VOC_code_reference

usedToBuildValueSet

Code Block
with(valueDomain[registeredName=current()/.]

No notes

None

VOC_code_reference

referencesConceptCode

None

#id is synthesized

Only stored if isHeadCode

None

VOC_code_reference

referencesInternalId

Highlight

color	gray

None

Internal id's aren't exposed in lexGrid

None

VOC_code_reference

relationship

Highlight

color	yellow

...valueDomainEntry/includeChildren = (relationship == 'hasSubtype')

Won't deal w/ non-hasSubtype relationships, but HL7 doesn't have any.

None

VOC_code_reference

includeReferencedCode

...valueDomainEntry/isSelectable

Not in current implementation

None

VOC_code_reference

leafOnly

Highlight

color	gray

None

Not used in HL7 Model

None

VOC_code_reference

directChildrenOnly

Highlight

color	gray

None

Not used in HL7 Model

None

VOC_code_reference

isHeadCode

Only used when referenced in VOC_value_set_constructor.

None

VOC_code_reference

referencesCodeSystem

.../valueDomainEntry.codingScheme

Shortcut in HL7 model. Must = VOC_value_set.basedOnCodeSystem

None

VOC_code_reference

arbitraryUniqueValue()

.../valueDomainEntry.id

No notes

None

VOC_registered_code_system

codeSystemId

VOC_registered_code_system isn't currently transferred to Lexgrid

No notes

None

VOC_registered_code_system

sponsor

Highlight

color	gray

None

No notes

None

VOC_registered_code_system

publisher

Highlight

color	gray

None

No notes

VOC_registered_code_system

versionReportingMethod

Highlight

color	gray

None

No notes

None

VOC_registered_code_system

licensingInformation

Highlight

color	gray

None

This field should really be transfer to copyright?

None

VOC_registered_code_system

inUMLS

Highlight

color	gray

None

No notes

None

VOC_registered_code_system

systemSpecificLocatorInfo

Highlight

color	gray

None

No notes

None

VOC_registered_code_system

uri

Highlight

color	gray

None

No notes

None

VOC_registered_code_system

isExternal

Highlight

color	gray

None

No notes

None

VOC_value_set

valueSetId

valueDomain.registeredName

No notes

None

VOC_value_set

valueSetName

Highlight

color	yellow

referencesInternalId

Internal id's aren't exposed in lexGrid

relationship

...valueDomainEntry/includeChildren = (relationship == 'hasSubtype')

Won't deal w/ non-hasSubtype relationships, but HL7 doesn't have any.

includeReferencedCode

...valueDomainEntry/isSelectable

Not in current implementation

leafOnly

Not used in HL7 Model

directChildrenOnly

Not used in HL7 Model

isHeadCode

Only used when referenced in VOC_value_set_constructor.

referencesCodeSystem

.../valueDomainEntry.codingScheme

Shortcut in HL7 model. Must = VOC_value_set.basedOnCodeSystem

arbitraryUniqueValue()

.../valueDomainEntry.id

VOC_registered_code_system

codeSystemId

VOC_registered_code_system isn't currently transferred to Lexgrid

sponsor

publisher

versionReportingMethod

licensingInformation

This field should really be transfer to copyright?

inUMLS

systemSpecificLocatorInfo

uri

isExternal

VOC_value_set

valueSetId

valueDomain.registeredName

valueSetName

valueDomain.valueDomain

Name is the key in LexGrid, and is optional in HL7 - will need to be addressed.

None

VOC_value_set

basedOnCodeSystem

Highlight

color	yellow

basedOnCodeSystem

valueDomain.defaultCodingScheme

Optional in HL7, required in LexGrid.

None

VOC_value_set

description

valueDomain.entityDescription

No notes

None

definingExpression

Not used.

allCodes

isTaxonomicSet

No mapping available

valueSetAuthority

Included in valueSetID

valueSetNumber

None

VOC_value_set

definingExpression

Highlight

color	gray

None

Not used.

None

VOC_value_set

allCodes

None

No notes

None

VOC_value_set

isTaxonomicSet

Highlight

color	yellow

None

No mapping available

None

VOC_value_set

valueSetAuthority

Highlight

color	gray

None

Included in valueSetID

None

VOC_value_set

valueSetNumber

Highlight

color	gray

None

No notes

None

VOC_value_set_constructor

usedToBuildValueSet

None

No notes

None

VOC_value_set_constructor

usedToBuildValueSet

includesOrExcludesSet

valueDomainEntry.includesValueDomain

No notes

None

VOC_value_set_constructor

includeHeadCode

valueDomainEntry.isSelectable

No notes

None

VOC_value_set_constructor

Highlight

color	yellow

Code Block
valueDomainEntry.conceptCode = VOC_code_reference [usedToBuildValueSet=current().usedToBuildValueSet and isHeadCode=true].referencesConceptCode

Assumes that there always is a head code.

None

VOC_vocabulary_domain_value_set

representsVocDomain

(selector)

None

VOC_vocabulary_domain_value_set

definedByValueSet

Code Block
codingscheme['VocabularyDomain'].concept[representsVocDomain] .property['definedByValueSet'].text

have to get 'representsVocDomain' into supportedProperty header

None

VOC_vocabulary_domain_value_set

appliesInContext

Code Block
codingscheme['VocabularyDomain'].concept[representsVocDomain] .property['definedByValueSet'].usageContext

Have to get all the contexts in the VocabularyDomain supportedContext header

None

VCS_release_version

releaseId

codingSchemeVersion.version

No notes

None

VCS_release_version

valueDomainVersion.version

Set iff if one or more value sets change

No notes

None

VCS_release_version

literal("false")

codingSchemeVersion.isComplete

All versions are delta's in this model

None

releaseAgency

None

VCS_release_version

releaseAgency

Highlight

color	gray

None

No notes

None

VCS_release_version

releaseDate

codingSchemeVersion.versionDate

No notes

None

VCS_release_version

valueDomainVersion.versionDate

None

No notes

None

VCS_release_version

description

codingSchemeVersion.entityDescription

No notes

None

VCS_release_version

valueDomainVersion.entityDescription

None

No notes

None

VCS_release_version

editorID

Highlight

color	yellow

None

There is no place for these currently.

forWhomID

None

VCS_release_versio

forWhomID

Highlight

color	yellow

None

No notes

None

VCS_release_version

concat('urn:oid:2.16.840.1.113883:',systemRelease.releaseId)

None

This corresponds to the containing system release when the sytem release occurs. It is empty until then.

...

None

LexGrid Text Mapping

Line

[<source>]

[<code>]

Code Block
Line	Source Definition	Comments		Column	1	Source Definition Column 2	Source Definition Column 3	Source Definition Column 4	Source Definition Column 5	Source Definition Column 6	Source Definition Column 7	Source Definition Column 8	Comments
1	<codingSchemeName>	<codingSchemeId>	<defaultLanguage>	<formalName>	_version_	[<version>]
_description_	[<description>]	[<copyright>] _copyright_	This must be the first line. It contains the coding scheme metadata.
	2 noformat	[<code>]	<name>	[<description>]	None	None	None	None	None _description_	Beginning of concepts in coding scheme.
3
No Format
<name>	[<description>]	None	None	None	None	None _description_	Represent hierarchical 'hasSubtype' relationship nesting (name hasSubtype name)

Text Element Coding Scheme	LexGrid	Comments
	Coding Scheme

codingSchemeName	codingScheme.codingSchemeName	No comments
codingSchemeId	codingScheme.codingSchemeId	No comments
defaultLanguage	codingScheme.defaultLanguage	No comments
formalName	codingScheme.formalName	No comments
version	codingScheme.representsVersion	Optional
source	codingScheme.source	Optional
description	codingScheme.entityDescription	Optional
	copyright	codingScheme.copyright	Optional

Text Element Concepts Concepts	LexGrid	Comments
code	concept.conceptCode	Optional
	name	concept.conceptName	No comments
description	concept.entityDescription	No comments

Scrollbar

icons	false

Content

Space Tools

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Old Version 3

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Key

Page infotitletitle

Overview

The Unified Medical Language System (UMLS) and Rich Release Format (RRF)

Files

OBO Mapping

Protege OWL

DatatypeProperty Representation

Owl

Code Block<owl:DatatypeProperty rdf:ID="currency"> <rdfs:domain rdf:resource="#Money"/> <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/> </owl:DatatypeProperty>In LexGrid, a DatatypeProperty is combination of a conceptProperty and Assocation.

Concept Property

Association

Equivalent Class Representation

Owl

Association

Restriction Representation

Owl

Association

Additional Examples

Owl

LexGrid

Property Restriction Representation

Example 1

Owl

Code Block<owl:Class> <owl:unionOf rdf:parseType="Collection"> <owl:Class rdf:about="#Hot"/> <owl:Class rdf:ID="Medium"/> <owl:Class rdf:about="#Mild"/> </owl:unionOf> </owl:Class>

LexGrid

Example 2

Owl

LexGrid

NCI OWL

NCI OWL Embedded XML

HL7 RIM

Building a Single Coding Scheme

Representing HL7 in LexGrid

Loading the HL7 RIM as a Monolithic Coding Scheme

LexGrid Text

Format A

Format B

Example of Format A

Example of Format B

LexEVS Loader Mappings

OWL Mapping - 4.2.1

OWL Mapping - 5.0

OWL Mapping - 5.0

OWL Mapping - NCI OWL

OWL Mapping - NCI OWL

Legacy Complex Prop Mapping

UMLS SemNet Mapping

UMLS Mapping

SNOMED UMLS Mapping

OBO Mapping

HL7 RIM Mapping

Legacy Complex Prop Mapping

UMLS SemNet Mapping

UMLS Mapping

SNOMED UMLS Mapping

OBO Mapping

HL7 RIM Mapping

LexGrid Text Mapping

Page info
title
title

Code Block
<owl:DatatypeProperty rdf:ID="currency"> <rdfs:domain rdf:resource="#Money"/> <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/> </owl:DatatypeProperty>
In LexGrid, a DatatypeProperty is combination of a conceptProperty and Assocation.

Code Block
<owl:Class> <owl:unionOf rdf:parseType="Collection"> <owl:Class rdf:about="#Hot"/> <owl:Class rdf:ID="Medium"/> <owl:Class rdf:about="#Mild"/> </owl:unionOf> </owl:Class>