Type: object
Description: Description of an external resource used for referencing an object. For example the resource may be an ontology such as the HPO or SNOMED. FHIR mapping: CodeSystem (http://www.hl7.org/fhir/codesystem.html)

Properties

id

• type: string

for OBO Ontologies, the value of this string MUST always be the official OBO ID, which is always equivalent to the ID prefix in lower case. Examples: hp, go, mp, mondo Consult http://obofoundry.org for a complete list For other ontologies (e.g. SNOMED), use the prefix in identifiers.org

id Value Example

"pato"

iriPrefix

• type: string

Full IRI prefix which can be used with the namespacePrefix and the OntologyClass::id to resolve to an IRI for a term. Tools such as the curie-util (https://github.com/prefixcommons/curie-util) can utilise this to produce fully-resolvable IRIs for an OntologyClass. e.g. Using the HPO term encoding the concept of ‘Severe’ OntologyClass: id: ‘HP:0012828’ label: ‘Severe’ Resource: namespacePrefix: ‘HP’ iriPrefix: ‘http://purl.obolibrary.org/obo/HP_’ the term can be resolved to http://purl.obolibrary.org/obo/HP_0012828

iriPrefix Value Example

"http://purl.obolibrary.org/obo/HP_"

name

• type: string

for OBO Ontologies, the value of this string SHOULD be the same as the title field on http://obofoundry.org however, this field is purely for information purposes and software should not encode any assumptions

name Value Example

"The Human Phenotype Ontology"

namespacePrefix

• type: string

The prefix used in the CURIE of an OntologyClass e.g. HP, MP, ECO For example an HPO term will have a CURIE like this - HP:0012828 which should be used in combination with he iriPrefix to form a fully-resolvable IRI

namespacePrefix Value Example

"HP"

url

• type: string

For OBO ontologies, this should always be the PURL

url Value Examples

"http://purl.obolibrary.org/obo/hp.owl"

"http://purl.obolibrary.org/obo/hp.obo"

version

• type: string

for OBO ontologies, this should be the versionIRI

version Value Example

"2.97"

Resource Value Examples

{
   "id" : "pato",
   "name" : "PhenotypicFeature And Trait Ontology",
   "namespacePrefix" : "PATO",
   "url" : "http://purl.obolibrary.org/obo/pato.owl",
   "version" : "2018-03-28"
}

{
   "id" : "efo",
   "name" : "Experimental Factor Ontology",
   "namespacePrefix" : "EFO",
   "url" : "http://purl.obolibrary.org/obo/pato.owl",
   "version" : "2.97"
}

{
   "id" : "ncbitaxon",
   "name" : "NCBI organismal classification",
   "namespacePrefix" : "NCBITaxon",
   "url" : "http://purl.obolibrary.org/obo/ncbitaxon.owl",
   "version" : "2018-03-02"
}

{
   "id" : "hp",
   "iriPrefix" : "http://purl.obolibrary.org/obo/HP_",
   "name" : "human phenotype ontology",
   "namespacePrefix" : "HP",
   "url" : "http://purl.obolibrary.org/obo/hp.owl",
   "version" : "2018-03-08"
}