oxford-pharmacoepi / cdm-etl-gold

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Covid vaccines in GOLD 202307 #21

Closed catalamarti closed 7 months ago

catalamarti commented 8 months ago

Describe the problem Hi @teenwyman in the previous release (gold_202301) we had millions of records of covid vaccines, now when we instantiate the same cohorts in the new release (gold_202307) they are empty. Has the mapping changed? thank youuu :)

Affected databases cprd_gold_202307

Tag for awareness @ajoedicke @Xintong-Li-ZnCu

teenwyman commented 8 months ago

@catalamarti Thank you for finding the bug in the ETL program. As discussed, data patching is required, and it is ongoing. I will update you once it is completed.

Here are some findings for your reference. In cdm_gold_202301, the following read codes have been used for mapping the covid-19 vaccination brand name. Read Code Description
65F0100 Administration of first dose of severe acute respiratory syndrome coronavirus 2 vaccine (procedure) (SNOMED CT Concept 1324681000000101)
65F0200 Administration of second dose of severe acute respiratory syndrome coronavirus 2 vaccine (procedure) (SNOMED CT Concept 1324691000000104)
65F0900 Administration of third dose of severe acute respiratory syndrome coronavirus 2 vaccine (procedure) (SNOMED CT Concept 1363861000000103)
65F0A00 Administration of fourth dose of severe acute respiratory syndrome coronavirus 2 vaccine (procedure) (SNOMED CT Concept 1363791000000101)
65F0B00 Administration of fifth dose of severe acute respiratory syndrome coronavirus 2 vaccine (procedure) (SNOMED CT Concept 1363831000000108)

In cdm_gold_202307, more read codes have been taken into account. You can find all read codes and brands (COVID Immunisation Types) we used for COVID-19 Vaccination here However,

teenwyman commented 7 months ago

Fixed.