https://w3id.org/omop/ontology/Vocabulary
The VOCABULARY table includes a list of the Vocabularies integrated from various sources or created de novo in OMOP CDM. This reference table contains a single record for each Vocabulary and includes a descriptive name and other associated attributes for the Vocabulary.
Instances of Vocabulary can have the following properties:
| PROPERTY | TYPE | DESCRIPTION | RANGE |
|---|---|---|---|
| From class Vocabulary | |||
| Reference | owl:DatatypeProperty | For Vocabulary: External reference to documentation or available download of the about the vocabulary. | string |
| Version | owl:DatatypeProperty | For Vocabulary: Version of the Vocabulary as indicated in the source. | string |
| From class OMOP CDM thing | |||
| Id | owl:DatatypeProperty | For Cohort Definition: This is the identifier given to the cohort, usually by the ATLAS application - For Procedure Occurrence: The unique key given to a procedure record for a person. Refer to the ETL for how duplicate procedures during the same visit were handled. Each instance of a procedure occurrence in the source data should be assigned this unique key. In some cases, a person can have multiple records of the same procedure within the same visit. It is valid to keep these duplicates and assign them individual, unique, PROCEDURE_OCCURRENCE_IDs, though it is up to the ETL how they should be handled. - For Vocabulary: A unique identifier for each Vocabulary, such as ICD9CM, SNOMED, Visit. - For Device Exposure: The unique key given to records a person's exposure to a foreign physical object or instrument. Each instance of an exposure to a foreign object or device present in the source data should be assigned this unique key. - For Condition Occurrence: The unique key given to a condition record for a person. Refer to the ETL for how duplicate conditions during the same visit were handled. Each instance of a condition present in the source data should be assigned this unique key. In some cases, a person can have multiple records of the same condition within the same visit. It is valid to keep these duplicates and assign them individual, unique, CONDITION_OCCURRENCE_IDs, though it is up to the ETL how they should be handled. - For Note Nlp: A unique identifier for the NLP record. - For Payer Plan Period: A unique identifier for each unique combination of a Person, Payer, Plan, and Period of time. - For Visit Detail: Use this to identify unique interactions between a person and the health care system. This identifier links across the other CDM event tables to associate events with a visit detail. This should be populated by creating a unique identifier for each unique interaction between a person and the healthcare system where the person receives a medical good or service over a span of time. - For Visit Occurrence: Use this to identify unique interactions between a person and the health care system. This identifier links across the other CDM event tables to associate events with a visit. This should be populated by creating a unique identifier for each unique interaction between a person and the healthcare system where the person receives a medical good or service over a span of time. - For Concept Class: A unique key for each class. - For Measurement: The unique key given to a Measurement record for a Person. Refer to the ETL for how duplicate Measurements during the same Visit were handled. Each instance of a measurement present in the source data should be assigned this unique key. In some cases, a person can have multiple records of the same measurement within the same visit. It is valid to keep these duplicates and assign them individual, unique, MEASUREMENT_IDs, though it is up to the ETL how they should be handled. - For Observation: The unique key given to an Observation record for a Person. Refer to the ETL for how duplicate Observations during the same Visit were handled. Each instance of an observation present in the source data should be assigned this unique key. - For Concept: A unique identifier for each Concept across all domains. - For Specimen: Unique identifier for each specimen. - For Domain: A unique key for each domain. - For Provider: It is assumed that every provider with a different unique identifier is in fact a different person and should be treated independently. This identifier can be the original id from the source data provided it is an integer, otherwise it can be an autogenerated number. - For Observation Period: A Person can have multiple discrete Observation Periods which are identified by the Observation_Period_Id. Assign a unique observation_period_id to each discrete Observation Period for a Person. - For Note: A unique identifier for each note. - For Location: The unique key given to a unique Location. Each instance of a Location in the source data should be assigned this unique key. - For Metadata: The unique key given to a Metadata record. Attribute value is auto-generated - For Relationship: The type of relationship captured by the relationship record. - For Care Site: Assign an ID to each combination of a location and nature of the site - the latter could be the Place of Service, name or another characteristic in your source data. - For Person: It is assumed that every person with a different unique identifier is in fact a different person and should be treated independently. Any person linkage that needs to occur to uniquely identify Persons ought to be done prior to writing this table. This identifier can be the original id from the source data provided if it is an integer, otherwise it can be an autogenerated number. - For Drug Exposure: The unique key given to records of drug dispensings or administrations for a person. Refer to the ETL for how duplicate drugs during the same visit were handled. Each instance of a drug dispensing or administration present in the source data should be assigned this unique key. In some cases, a person can have multiple records of the same drug within the same visit. It is valid to keep these duplicates and assign them individual, unique, DRUG_EXPOSURE_IDs, though it is up to the ETL how they should be handled. | owl:Thing |
| From class Thing | |||
| OMOP CDM name | owl:AnnotationProperty | owl:Thing | |
@prefix omop: <https://w3id.org/omop/ontology/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
omop:Vocabulary a owl:Class ;
rdfs:label "Vocabulary"^^xsd:string ;
rdfs:comment "The VOCABULARY table includes a list of the Vocabularies integrated from various sources or created de novo in OMOP CDM. This reference table contains a single record for each Vocabulary and includes a descriptive name and other associated attributes for the Vocabulary."@en ;
rdfs:subClassOf [ a owl:Restriction ;
owl:allValuesFrom xsd:string ;
owl:onProperty omop:name ],
[ a owl:Restriction ;
owl:onProperty omop:name ;
owl:someValuesFrom xsd:string ],
[ a owl:Restriction ;
owl:allValuesFrom omop:Concept ;
owl:onProperty omop:has_concept ],
[ a owl:Restriction ;
owl:onProperty omop:has_concept ;
owl:someValuesFrom omop:Concept ],
[ a owl:Restriction ;
owl:allValuesFrom xsd:string ;
owl:onProperty omop:reference ],
[ a owl:Restriction ;
owl:allValuesFrom xsd:string ;
owl:onProperty omop:version ],
omop:OmopCDMThing ;
omop:omop_cdm_name "vocabulary"^^xsd:string .