Transcript OTuama KOS-Intro TDWG2011

BIS TDWG Conference, New Orleans 2011
Knowledge Organization Systems Session Introduction
Éamonn Ó Tuama
Senior Programme Officer, Inventory, Discovery, Access (IDA)
Global Biodiversity Information Facility (GBIF)
20 October 2011
KOS symposium
1. Introduction: the GBIF context (Éamonn Ó Tuama)
2. GBIF KOS task group report (Bob Morris)
3. The GBIF KOS work programme: prioritised
requirements and proposed solutions (Dag
Endresen)
4. BioPortal as an ontology management system
(Hilmar Lapp)
5. The TDWG Vocabularies (Greg Whitbread)
6. Managing the Darwin Core set of terms (John
Wieczorek)
Knowledge Organization Systems
... to manage the vocabularies used for
sharing biodiversity information.
- Term lists: glossaries, dictionaries, gazetteers
- Classifications / categorizations: taxonomies
e.g., Dewey Decimal Classification
- Relationships: thesauri, ontologies
simple relationships
a model of a domain
Hodge G. 2000. Systems of Knowledge Organization for Digital Libraries: Beyond Traditional Authority
Files. http://www.clir.org/pubs/reports/pub91/contents.html
Darwin Core – a glossary of terms
higherClassification
coordinatePosition
specificEpithet
geodeticDatum
collectionCode
taxonConceptID
taxonRank
collectionCode: The name, acronym, coden, or initialism
identifying the collection or data set from which the record was
derived. Examples: "Mammals", "Hildebrandt", "eBird".
AgroVoc vocabulary – a thesaurus
bt Resources
nt Natural
resources
nt Biological resources
nt Genetic resources
nt
bt = broader term
nt = narrower term
uf = used for
rt = related term
SKOS
Simple
Knowledge
Organisation
System
Germplasm
uf Genetic
material
uf Germplasm resources
rt Protoplasm
rt Genes
rt Gene pools
rt Biodiversity
rt Germplasm collections
rt Gametes
http://aims.fao.org/standards/agrovoc/functionalities/hierarchy
Ontology – a model of a domain
inverseOf
The facts:
(owl:inverseOf collectorOf hasCollector)
(collectorOf Charles_Darwin Galapagos_Finches)
Imply the fact:
(hasCollector Galapagos_Finches Charles_Darwin)
sameAs
The facts:
(owl:sameAs Human Person)
(rdf:type Human rdfs:Class)
(rdf:type Person rdfs:Class)
imply the fact
(owl:equivalentClass Human Person)
transitiveProperty
The facts:
(rdf:type hasAncestor owl:TransitiveProperty)
(hasAncestor Charles_Darwin Robert_Darwin)
(hasAncestor Robert_Darwin Erasmus_Darwin)
imply the fact
(hasAncestor Charles_Darwin Erasmus_Darwin )
http://www.ksl.stanford.edu/software/jtp/doc/owl-reasoning.html
ontologies = computable dictionaries
Need for KOS
- lack of vocabularies/ontologies (eBiosphere)
- requirement for principles and best practices for
developing ontologies (TDWG 2009)
- advance the TDWG ontology architecture (TDWG 2009)
- tools for TDWG Interest Groups to support standard
development process (TDWG 2009)
- recognition that not everyone has to be an ontologist use of human readable vocabularies + ontology proper
(TDWG 2009)
- collaboration on ongoing support mechanisms for
essential shared vocabularies (GBIF LGTG Report)
- hackathon to merge Darwin Core with existing TDWG
ontologies and current GBIF vocabularies work
(GBIF LGTG Report)
GBIF position paper on KOS
Robert A Morris
Terry Catapano
Donald Hobern
Hilmar Lapp
Norman Morrison
Natasha Noy
Mark Schildhauer
David Thau
GBIF Vocabularies Service
Mapping tools for a range of
community-supported vocabularies
and Darwin Core extensions
GBIF Vocabularies Service
Audubon Core extension
to Darwin Core
KOS activities at GBIF
Key requirement: a platform to support the
development, maintenance and governance of
vocabularies for the biodiversity community
- New dedicated position at GBIF
(Dr Dag Endresen) funded through
external projects (ViBRANT, i4Life)
- Engage with wider community:
- participation in Dublin Core workshop, Sept 2011
- KOS symposium at TDWG 2011 Conf, Oct 2011
- Review GBIF Vocabularies Service and related
systems -> develop vocabulary management system
- Review recommendations in KOS task group
report and develop implementation roadmap
DCMI Vocabulary Workshop
Den Haag, 21 Sept, 2011
- No turn-key solution
- Managing a forum in which community can
focus on issues around management of
vocabularies and develop best practices
- Very keen to collaborate with TDWG and
share experience
Key issues
1. Establishing a community site for managing
our vocabularies
2. Central role of TDWG TAG
3. Whither the TDWG vocabularies site?
4. Whither the TDWG vocabularies?
5. Relationship of DwC to TDWG vocabularies
6. Separating term definitions from modeling
7. Introducing semantics in DwC: identifying
classes – a good idea?
8. Need for a high level conceptual model?