oborel / obo-relations

RO is an ontology of relations for use with biological ontologies
http://oborel.github.io/
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Add "concretizes" and "is concretized as" to RO Core #28

Closed GoogleCodeExporter closed 9 years ago

GoogleCodeExporter commented 9 years ago
Can we please add "concretizes" and "is concretized as" to RO Core?

(Moved from the OBI tracker: https://sourceforge.net/p/obi/obi-terms/706/)

These were originally OBI/IAO atemporal relations, that were incorporated into 
ruttenberg-bfo2.owl as atemporal, then temporalized in the BFO2 Graz 
development release. I think that they should use the same numeric IDs as their 
BFO2 counterparts but in RO ID space. See "non-temporalized RO relations" for 
other examples: https://code.google.com/p/obo-relations/wiki/ROAndBFO

suggested ID: RO_0000059
label: concretizes
domain: specifically dependent continuant
range: generically dependent continuant
inverse of: is concretized as
textual definition: A relationship between a specifically dependent continuant 
and a generically dependent continuant, in which the generically dependent 
continuant depends on some independent continuant in virtue of the fact that 
the specifically dependent continuant also depends on that same independent 
continuant. Multiple specifically dependent continuants can concretize the same 
generically dependent continuant.
example of usage: A journal article is an information artifact that inheres in 
some number of printed journals. For each copy of the printed journal there is 
some quality that carries the journal article, such as a pattern of ink. The 
quality (a specifically dependent continuant) concretizes the journal article 
(a generically dependent continuant), and both depend on that copy of the 
printed journal (an independent continuant).
example of usage: An investigator reads a protocol and forms a plan to carry 
out an assay. The plan is a realizable entity (a specifically dependent 
continuant) that concretizes the protocol (a generically dependent continuant), 
and both depend on the investigator (an independent continuant). The plan is 
then realized by the assay (a process).

suggested ID: RO_0000058
label: is concretized as
domain: generically dependent continuant
range: specifically dependent continuant
inverse of: concretizes
textual definition: a relationship between a generically dependent continuant 
and a specifically dependent continuant, in which the generically dependent 
continuant depends on some independent continuant in virtue of the fact that 
the specifically dependent continuant also depends on that same independent 
continuant. A generically dependent continuant may be concretized as multiple 
specifically dependent continuants.
example of usage: A journal article is an information artifact that inheres in 
some number of printed journals. For each copy of the printed journal there is 
some quality that carries the journal article, such as a pattern of ink. The 
journal article (a generically dependent continuant) is concretized as the 
quality (a specifically dependent continuant), and both depend on that copy of 
the printed journal (an independent continuant).
example of usage: An investigator reads a protocol and forms a plan to carry 
out an assay. The plan is a realizable entity (a specifically dependent 
continuant) that concretizes the protocol (a generically dependent continuant), 
and both depend on the investigator (an independent continuant). The plan is 
then realized by the assay (a process).

This will also require adding "generically dependent continuant" to RO's 
bfo-classes-minimal.owl file.

I'm happy to do the work, but I want to get the approval of other developers 
before I make any changes to RO.

Original issue reported on code.google.com by ja...@overton.ca on 24 Nov 2014 at 9:07

GoogleCodeExporter commented 9 years ago
I haven't heard any objections in a couple of weeks, so I plan to go ahead with 
this tomorrow:

- add these two terms to core.owl
- add 'generically dependent continuant' (BFO_0000031) to 
bfo-classes-minimal.owl

Original comment by ja...@overton.ca on 10 Dec 2014 at 5:43

GoogleCodeExporter commented 9 years ago
This issue was closed by revision r391.

Original comment by ja...@overton.ca on 12 Dec 2014 at 2:47