Minutes Data Working Group 20 Apr 2021

Agenda

1. (Brad) Review the WG-joint work to build a sample FHIR representation of COVID grand challenge data. Suggested datasets:
   1. COVID-19 2020 Lung CT Lesion Segmentation Challenge - cannot get access
   2. Other sources: Center for Artificial Intelligence in Medicine & Imaging COVID-19 Data
2. (All) Review the discussion at Github on mixed datasets
3. (All) Review if there are any Github issues/discussions tagged with #DataWorkingGroup or that should be flagged for this group to discuss
4. (Wenqi) Updates from MONAI development

Sample FHIR Representation

• Based on https://www.kaggle.com/hgunraj/covidxct?select=metadata.csv

• Example is not currently correct (it is a batch of batches; but the child batch elements do not match the correct objects)

  { "resourceType": "Bundle", "id": "sequence0", "meta": { "lastUpdated": "2021-04-19T08:00:00-04:00" }, "type": "batch", "entry": [{ "resourceType": "Bundle", "id": "cp_1068", "meta": { "lastUpdated": "2021-04-19T08:00:00-04:00" }, "type": "batch", "entry": [{ "resourceType": "Observation", "id": "endoscope_frame0", "text": { "status": "generated", "div": "<div xmlns="http://www.w3.org/1999/xhtml">

  (human readable text)

  " }, "status": "final", "category": [{ "coding": [{ "system": "http://terminology.hl7.org/CodeSystem/observation-category", "code": "procedure", "display": "Procedure" }] }], "code": { "coding": [{ "system": "urn:oid:2.16.840.1.113883.6.24", "code": "(appropriate code for endoscope)", "display": "(appropriate label for endoscope)" }] }, "subject": { "reference": "Patient/12345678", "display": "SMITH, J (ID:12345678)" }, "effectiveDateTime": "2020-08-01T08:00:00-04:00", "performer": [{ "reference": "Practitioner/87654321", "display": "DOE, J" }], "device": { "display": "Endoscope" } }, { "resourceType": "Observation", "id": "endoscope_frame0", "text": { "status": "generated", "div": "<div xmlns="http://www.w3.org/1999/xhtml">

  (human readable text)

  " }, "status": "final", "category": [{ "coding": [{ "system": "http://terminology.hl7.org/CodeSystem/observation-category", "code": "procedure", "display": "Procedure" }] }], "code": { "coding": [{ "system": "urn:oid:2.16.840.1.113883.6.24", "code": "(appropriate code for endoscope)", "display": "(appropriate label for endoscope)" }] }, "subject": { "reference": "Patient/12345678", "display": "SMITH, J (ID:12345678)" }, "effectiveDateTime": "2020-08-01T08:00:00-04:00", "performer": [{ "reference": "Practitioner/87654321", "display": "DOE, J" }], "device": { "display": "Endoscope" } } ] }] }

Notes

Action Items