Definition of laboratory test

[adrien-barton]

Currently, the definition of "Laboratory test" (OGMS_0000056) is the following: "A measurement assay that has as input a patient-derived specimen and as output a data item that is about a quality of the specimen."

However, there are two problems with this definition:

1. a laboratory test can fail and not lead to any data item about a quality of the specimen.
2. the output of a (non-failing) laboratory test is not always about a quality of the specimen: it could be e.g. about a disposition, a temporal duration (when assessing the coagulation speed of a blood specimen), etc.

A twofold suggestion could therefore be to:

• make the definition of "Laboratory test" more general, e.g.: "A measurement assay that has as input a specimen derived from an organism and that aims at having as output a data item that is about an entity related to the specimen."
• add a subclass of "Laboratory test" named e.g. "Validated laboratory test", defined as follows: "A laboratory test that has as specified output a laboratory finding."

Maybe "about an entity related to the specimen" is a bit too general, and could be simplified by "about the specimen", if we suppose that something that is about a dependent continuant inhering in the specimen, or about a process to which the specimen participates, is also about the specimen.

Note that this has also consequences on the definition of "laboratory finding" (OGMS_0000018).

[rvita]

Will this term relate to 'clinical measurement' http://purl.obolibrary.org/obo/CMO_0000000 and/or assay http://purl.obolibrary.org/obo/OBI_0000070? both of those terms include many laboratory tests and overlap with your needs.

[sivaramarabandi]

From a quick look the OGMS term is narrower than CMO term 'clinical measurement http://purl.obolibrary.org/obo/CMO_0000000'. Eg. it has as sub-class the term 'body temperature http://purl.obolibrary.org/obo/CMO_0000015' which is traditionally not considered a 'lab test'. And the OBI term is broader and would apply to an analysis of any substance

• not just biological.

cheers Sivaram

---

Sivaram Arabandi, MD, MS

ONTOPRO

W: http://ontopro.com/ Ph: 832.726.2322 Li : https://www.linkedin.com/in/sivaramarabandi/

Think Semantics. Tame Silos.

On Wed, Oct 16, 2019 at 10:33 AM rvita [email protected] wrote:

Will this term relate to 'clinical measurement' http://purl.obolibrary.org/obo/CMO_0000000 and/or assay http://purl.obolibrary.org/obo/OBI_0000070? both of those terms include many laboratory tests and overlap with your needs.

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[zhengj2007]

Is 'laboratory test' (http://purl.obolibrary.org/obo/OGMS_0000056) a subClass of OBI:assay? If so, how can we distinguish it with OBI:assay (http://purl.obolibrary.org/obo/OBI_0000070)? Does it work if we add a specific objective for 'laboratory test'?

Related tracker: https://github.com/obi-ontology/obi/issues/1379