Re: Property reuse versus property minting

Melanie, All,

Sorry for any confusion that I have caused in starting this thread.

This thread is intended to discuss the generic issue of when we propose a new schema.org<http://schema.org> property versus reusing a term from an existing ontology.

Discussions specifically about modelling taxa should continue to take place in the Google document.

Alasdair

On 31 Oct 2018, at 10:55, ljgarcia <ljgarcia@ebi.ac.uk<mailto:ljgarcia@ebi.ac.uk>> wrote:

Hi Melanie, Alasdair

NCBI links work well for Samples but not necessarily for those Biodiversity communities who want to expose their contect via schema/bioschemas, they need to specify name, id, and so on. Similar to what happens for proteins and others, rather than just using CategoryCode to point to UniProt ontology and terms, haing a Protein type would also enable a richer mark up.

Also, I think Alasdair and Franck's question refers to properties rather than types. Taxon is proposed as a type, not as a property.

Regards,



On 2018-10-31 10:37, Melanie Courtot wrote:
Hi Alasdair, all,
The google doc points to this thread as the place to follow discussion
regarding the Taxon proposed entity. In the specific case of Taxon I
would prefer to reuse the NCBI taxonomy directly - it is a well
established vocabulary, and we could easily include it if we were to
use the construct from the sample specification [2], in which we use
categoryCode with ontology terms.
As indicated in the spec, the *only* change needed for this to work is
to include CategoryCode as an expected type for valueReference.
Cheers,
Melanie
On 30 Oct 2018, at 09:11, Gray, Alasdair J G <A.J.G.Gray@hw.ac.uk<mailto:A.J.G.Gray@hw.ac.uk>>
wrote:
Hi All,
The following question has been raised by Franck Michel in the
current proposal for Bioschemas (review period ends on Thursday).
https://docs.google.com/document/d/1Cw9K25N1l-Lbet1cahJuFtYgNKiF76apGcCqJPSeuZg/edit?usp=sharing
"When do we reuse existing properties from other ontiologies?"
The approach taken in developing the proposal was that any property
that was minimal or recommended should be minted as new properties.
Properties that were optional were OK to be taken from existing
ontologies. However, we do need to consider the logical implications
of the latter. Newly minted properties have been mapped (the exact
mapping term is up for discussion) to the existing ontology term
that was previously identified.
The rationale for this decision was that the minimal and recommended
properties would then be understood by generic consumers, e.g. the
major search engines, and could be exploited in returning rich
snippets.
This is about trying to strike the right balance between adding a
limited set of additional types and properties to schema.org<http://schema.org/> [1] and
not reinventing all the work that has taken place in ontology
development in the life sciences.
This email thread is your chance to help shape this design decision
for the development of future Bioschemas profiles.
Best regards
Alasdair
--
Alasdair J G Gray
Associate Professor in Computer Science,
School of Mathematical and Computer Sciences
Heriot-Watt University, Edinburgh, UK.
Email: A.J.G.Gray@hw.ac.uk<mailto:A.J.G.Gray@hw.ac.uk>
Web: http://www.macs.hw.ac.uk/~ajg33
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--
Alasdair J G Gray
Associate Professor in Computer Science,
School of Mathematical and Computer Sciences
Heriot-Watt University, Edinburgh, UK.

Email: A.J.G.Gray@hw.ac.uk<mailto:A.J.G.Gray@hw.ac.uk>
Web: http://www.macs.hw.ac.uk/~ajg33
ORCID: http://orcid.org/0000-0002-5711-4872
Office: Earl Mountbatten Building 1.39
Twitter: @gray_alasdair