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Define some key OBO Foundry concepts #1448

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matentzn opened this issue Feb 28, 2021 · 6 comments
Open

Define some key OBO Foundry concepts #1448

matentzn opened this issue Feb 28, 2021 · 6 comments
Labels
governance Related to the work of the Governance Committee policy Issues and discussion related to OBO Foundry policies

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@matentzn
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matentzn commented Feb 28, 2021 •
edited

Term Definition Distinguish from
OBO Ontology Ontology developed in accordance with OBO principles and accepted to be listed in the OBO Ontology Library. Can be serialised in any number of formats, including OWLXML, OBO, JSON and RDFXML. Ontology in OBO format, Open Biomedical/Biological Ontology
OBO Ontology Library The ontology library located here. OBO Ontology Registry (term used in README here
Ontology in OBO format An ontology serialised in the OBO format. OWL Ontology
OBO-compliant ontology An ontology developed in accordance with OBO principles but not accepted to the OBO Ontology Library.
Biological/biomedical ontology Any ontology in the biological/biomedical domain including open and commercial. OBO Ontology
Open biological/biomedical ontology Any ontology in the biological/biomedical domain, e.g. most ontologies listed in Bioportal, available under an open license. OBO Ontology
OBO Foundry Ontology Deprecation candidate: previously referring to an ontology that was reviewed through a specific OBO Foundry review process that has not been applied for a few years. OBO Ontology (parent term)

Hierarchy (adapted from @lubianat proposal)

  • Ontology
    • Ontology by serialisation
      • Ontology in OBO format (although we have argued many times in the past that OBO is, in essence, a syntax of a subset of OWL)
      • OWL ontology
    • Medical/Biomedical/Biological Ontology
      • Open Medical/Biomedical/Biological Ontology
        • OBO-compliant Ontology
          • OBO Ontology
            • OBO Foundry Ontology (marked for obsoletion)
@lubianat
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Nice, @matentzn , looks great!

I hope it is not pedantic, but maybe in the definition of "Open biological/biomedical ontology" could there be something saying that it is "openly available" or "available for general use" or "available under an open license" to clarify what "open" means in
the context? Or maybe just adding "open" would be good enough, perhaps?

@matentzn
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Yeah adjusted that text! Good point.

@nlharris nlharris added attn: Operations Committee Issues pertinent to broad Foundry activities, such as policies and guidelines policy Issues and discussion related to OBO Foundry policies labels Mar 2, 2021
@matentzn matentzn mentioned this issue Mar 4, 2021
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@mellybelly
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This ticket could be tagged with a governance tag, as an example of one that needs community decision-making.

@matentzn matentzn added the governance Related to the work of the Governance Committee label Jun 13, 2021
@matentzn
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Made a governance label and tagged!

@matentzn matentzn removed the attn: Operations Committee Issues pertinent to broad Foundry activities, such as policies and guidelines label Jul 13, 2021
@nlharris
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see also #148

@nlharris
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see also new issue #2199

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@nlharris @mellybelly @matentzn @lubianat