[Mged-mage] ontology annotation properties

[Miller, M. D (Rosetta) <Michael_Miller@Rosettabio.com>]

hi trish, chris and helen,

i've been thinking about how ontology annotation properties can be
handled in MAGE and wanted to run some ideas past you all.

in looking at the w3c owl documentation i found
(http://www.w3.org/TR/owl-ref/#Annotations):

	"Five annotation properties are predefined by OWL, namely:
*	owl:versionInfo=20
*	rdfs:label=20
*	rdfs:comment=20
*	rdfs:seeAlso=20
*	rdfs:isDefinedBy"=20
plus how addition annotation properties can be defined per ontology.  so
for any arbitrary ontology, it seems there can be a set of annotation
properties distinct to that ontology and they can be on classes, and
object and datatype properties.  so the question becomes how that can be
encoded in MAGE.

to keep with the current best practice does this seem appropriate?

              <OntologyEntry category =3D "classname" value =3D =
"classname">
                <OntologyReference_assn>
                  <DatabaseEntry accession=3D"@classname">
                    <Database_assnref>
                       <Database_ref
identifier=3D"www.ontology.com:Database:ontology name" name=3D"ontology
name"/>
                    </Database_assnref>
                  </DatabaseEntry>
                </OntologyReference_assn>
                <Associations_assnlist>
                  <!-- annotation properties for a class -->
                  <OntologyEntry category =3D "annotation_properties"
value =3D "annotation_properties" >
                    <Associations_assnlist>
                      <OntologyEntry category =3D "label" value =3D =
"Class
Name" />
                      <OntologyEntry category =3D "arbitrary property"
value =3D "arbitrary value" />
                    </Associations_assnlist>
                  </OntologyEntry>
                  <OntologyEntry category =3D "datatypepropertyname" =
value
=3D "datatypepropertyname" >
                    <Associations_assnlist>
                      <OntologyEntry category =3D "datatypeproperty" =
value
=3D "value" />
                      <!-- annotation properties for a datatype property
-->
                      <OntologyEntry category =3D =
"annotation_properties"
value =3D "annotation_properties" >
                        <Associations_assnlist>
                          <OntologyEntry category =3D "label" value =3D
"Datatype Property Name" />
                        </Associations_assnlist>
                      </OntologyEntry>
                    </Associations_assnlist>
                  </OntologyEntry>
                </Associations_assnlist>
              </OntologyEntry>

cheers,
michael

Michael Miller
Lead Software Developer
Rosetta Biosoftware Business Unit
www.rosettabio.com