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| − | =RO - OBO Relation Ontology= | + | = Announcement = |
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| − | The main RO page is located on sourceforge:
| + | OBO_REL has been replaced by RO - the new website and wiki can be found at http://purl.obolibrary.org/obo/ro |
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| − | - [http://obo.sourceforge.net/relationship]
| + | Old material that was previously kept here has been moved to [[RO:Historic Material]] |
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| − | You can browse the ontology, get mail list details etc there
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| − | =Open issues=
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| − | ==Proposed new relations==
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| − | The lacks family of relations is being discussed
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| − | Next we will be examining:
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| − | has_function, has_quality, and relations that deal with creation, consumption and development
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| − | The derives_from relation has been criticised from an ontological POV (REF?). There is also the terminological problem that "derives_from" is used specifically for evolutionary relationships by some. We will report back on this after the september NCBO anatomy meeting. We may create a "develops_from" parent for transformation_of corresponding to how that relation is currently used in MOD AOs
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| − | ==Hunter/Bada Proposal for new relations==
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| − | We propose the addition of nine new relationships (and nine additional inverse relationships) to the RO. The relationship are defined and linked to the existing relationships in this OBO file [[media:Relationship-proposal.zip]]. Each of our proposed relationships has a range over the GO biological process hierarchy, although with varying domains, mostly over continuents.
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| − | Perhaps the most basic of these is intended to capture the idea of a process leading to a change in a continuent: <process> results-in-change-in <continuent> (see the above linked OBO file for formal definitions). We also propose two more specific versions of this when the continuent is either the thing changed (results-in-change-from) or the thing that results from the change (results-in-change-to).
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| − | In addition, we propose well over 1000 instances of these relationships among terms from the GO, ChEBI and CTO ontologies. For example, we identified 30 instances of a <GO Biological Process>
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| − | results-in-change-in <ChEBI term>, 13 instances where <GO:BP> results-in-change-in <GO:CC> and 41 instances where <GO:BP> results-in-change-in <CTO term>. The more specific relationships are actually more prevalent: we propose 593 instances of <GO:BP> results-in-change-to <ChEBI term>
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| − | The other relationships we propose are:
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| − | * results-in-capability-to-change-to
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| − | * results-in-directed-movement-of
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| − | * results-in-division-of
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| − | * results-in-joining-of
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| − | * results-in-perception-of
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| − | * results-in-regulation-of
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| − | Definitions of each and positions in the RO hierarchy are in the OBO file.
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| − | We've posted a message with the subject "Hunter/Bada Proposal for New Relations" on the relationship-ontology mailing list describing our rationales for these in more detail.
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| − | ==OWL Conversion==
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| − | The standard GO obo->owl conversion is used. See [[OboInOwl:Main_Page]] for details
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| − | obo1.2 defines "builtin" tags for relations that are hardwired into the obo semantics - is_a and instance_of are tagged builtin. These are not exported in OWL, as these are also part of the OWL language
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