Gender Identity and Pronouns in OMOP CDM

[bnhamlin]

Issue Type: Lack of an ETL convention for a CDM table and/or field

Issue Name: Updating OMOP Observation Table to represent Gender Identity (GI) and Personal Pronouns as standard concepts

Description: There are standard concepts in HL7 and ONC to represent capture of Gender Identity and Personal Pronouns in clinical datasets. The GI and pronoun data elements should be stored as Observations as, unlike recorded birth sex, these elements may change over time as a person realizes their own identity through medical and/or surgical treatment. These elements also may not align with recorded birthsex and therefore are related closely to Observation Period for the purposes of observational research design.

Related forum post: OHDSI/CommonDataModel#563

Suggested solution: Represent GI and Pronouns as standard vocabulary using value sets published for HL7 FHIR and ONC USCDI v5 for Gender Identity [https://terminology.hl7.org/6.0.2/ValueSet-gender-identity.html] and LOINC Value Set for Pronouns (LOINC 90778-2)

Gender_FHIR_OMOP_Harmonization (1).pptx

Reported By: Ben Hamlin

[MelaniePhilofsky]

@bnhamlin This is a vocabulary and Themis issue. First the Vocab team needs to add these codes into the vocabulary as standard concept_ids (or identify standard concept_ids for these ideas of interest), then Themis can write up how these data should be inserted into the OMOP CDM.

@cgreich Please transfer this to the Vocab GitHub. Thanks!