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bio-ontology-research-group / unit-ontology

An ontology of units of measurements
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NTR: four terms for clinical assays etc., motivated by LOINC #30

Closed turbomam closed 1 year ago

turbomam commented 4 years ago

The PennTURBO team is creating axiomatic definitions for organismal assays. This is motivated by instantiating "lab results" in our electronic health records system, although most of the assays will be applicable to research on model organisms, too. From our weekly OBI developers discussions, it looks like the assays will be importable as an OBI module.

We're bootstrapping the process with a subset of LOINC, which describes the property that is being measured (like concentration), not the units per se. However, we would like our axioms to specify what measurement datum, as defined by the units, is expected as the output of each assay.

Here are four LOINC properties for which we haven't been able to find corresponding units in UO. Would you please add them to UO?

EDIT: prefix : <http://purl.bioontology.org/ontology/LNC/>

BioPortal LOINC IRI LOINC Abbrev. LOINC Descr. Example Assay Code Example Assay Descr. Relation to existing UO term?
:LP6773-8 ACnc arbitrary units per volume 10334-1 Cancer Ag 125 [Units/volume] in Serum or Plasma subclass of (or equivalent to?) 'unit per volume unit' obo:UO_0000177
:LP6787-8 ArVRat aric volume rate; volume per unit time per unit 69405-9 Glomerular filtration rate/1.73 sq M.predicted [Volume Rate/Area] in Serum, Plasma or Blood subclass of 'volumetric flow rate unit' obo:UO_0000270
:LP70220-6 LsCnc log substance concentration 9347-6 combined acid of Gastric fluid subclass of 'unit of molarity' obo:UO_000006
:LP6836-3 NCnc number per volume 30412-1 Abnormal lymphocytes [#/volume] in Blood subclass of 'concentration unit' obo:UO_0000051
jamesaoverton commented 4 years ago

@leechuck If we make a PR for this, would you be open to merging it?

Alternatively, I'd be happy to be added as a contributor, and take care of these additions.

leechuck commented 4 years ago

I gave you write access, please feel free to add the terms!

jamesaoverton commented 4 years ago

Much appreciated! I'll get to this in a few days.

reality commented 1 year ago

feel free to re-open if this needs more attention