Additional biocuration to fill gaps identified when using HPO on FHIR in production

data2health / ehr2HPO.prj

Conversion of EHR data (such as LOINC) to HPO codes

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Additional biocuration to fill gaps identified when using HPO on FHIR in production #7

Closed pnrobinson closed 4 years ago

nicolevasilevsky commented 5 years ago

@pnrobinson what are the specific action items for this ticket?

pnrobinson commented 5 years ago

This is an issue that depends on another issue being completed before we can start it. @jmcmurry is there any way to show that using GH features? The issue is meant to say that we would like to test the LOINC2HPO app in a CTSA, do a gaps analysis, and then biocurate for any common tests that are not currently annotated. We cannot start until we have done that test though. :-0

nicolevasilevsky commented 5 years ago

Ok! thanks for the clarification. :)

jmcmurry commented 5 years ago

Currently, the only way to represent that is just a comment "Depends on "; there is no formal "dependency tracking" however, as you know, the link from one issue is reflected in the other without any additional effort. I recommend in such cases using the label "Status: blocked" to flag these.

kingmanzhang commented 4 years ago

We have completed this by identifying missing LOINC annotations from the analysis of the MIMIC dataset, which came from real EHR settings.