Hi all, I apologize in advance if this is redundant, but I can’t find the answers to my questions.
I am in the process of implementing OMOP from a CERNER database and have lots of doubts about the concepts. I will greatly appreciate if someone can answer the following questions with “Correct” or “Incorrect, do this instead”. My confusion is that seems like I need to convert everything to SNOMED.
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Starting with PERSON, the Gender, Race and Ethnicity concepts should be from the domain/vocabulary Gender, Race and Ethnicity respectively, if unknown concept is 0, correct?
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For the DEATH table, “death type concept” should be from the domain/vocabulary Type Concept/Death Type and “cause concept” should be a a domain/vocabulary condition/SNOMED, correct?
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Similarly for table CARE_SITE “place of service”, OBSERVATION_PERIOD “period type” and VISIT_OCCURRENCE “visit” and “visit type” should be from the domain/vocabulary Place of service/Place of Service, Type Concept/Obs Period Type, Visit/Visit and Type Concept/Visit Type, correct?
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For CONDITION_OCCURRENCE and PROCEDURE_OCURRENCE the “concept_id” should be SNOMED from the Condition/SNOMED, the “type concept” should be from the Type Concept/Condition (or Procedure) Type and the source concepts are the ones in which my original data is, which in this case will me mostly ICD9 and 10 and CPT, correct?
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Finally… if my data is in ICD or CPT, I need to map it to SNOMED first, should I use the CONCEPT_RELATIONSHIP table to do this with a relationship field to “Maps to” and the concept be Condition/SNOMED ?
Thanks in advance.
EV