9. Colony Count Observation - Healthedata1/OO-on-FHIR-Micro-Profile GitHub Wiki

This Profile on Observation defines the colony count observations for a culture.

Laboratories may Quantify the bacteria growth in culture using a variety of methods.

Based on DAF-Core/US-Core plus additional USlab (LRI) and US-Core Micro Report constraints (in italics):

Each Observation must include:

  1. a status
  2. a category code of ‘laboratory’
  • micro category code as translation
  1. a LOINC code, which tells you what is being measured
  2. performing organization
  3. a patient
  4. a quantitative result value or a reason if there are no values

Each Gram stain Observation must include: must support:

(stuff from LRI OBX and OBR)

  1. an identifier (Filler/Placer) - Discuss whether this is a must support - not an LRI requirement
  2. a time indicating when the specimen was collected
  3. a time indicating when the measurement was reported
  4. the specimen
  5. a specimen rejection reason This is really a data absent reason and should go there instead of an extension on Obs - consider a DAR profile
  6. a referenceRange (discuss if needed)

(note: the LRI requirement for AOE vs results category is not needed for this profile since is implicitly a result profile)

Terminology considerations ( note need help from community to work these out)

  1. For Observation.code - extensible binding to a set LOINC Codes with COMPONENT = Colony count
  1. For UCUM units consider /uL or {CFU}/uL ( discuss )

View US-Core Colony Count StructureDefinition