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Presentation at the VIVO 2011 conference
1. CIARD - creating a global framework for
information sharing in agricultural research
and innovation – Role of VIVO
Talk at the VIVO 2011 conference
Dr. Johannes Keizer
Office of Knowledge Exchange, Research and Extension
Food and Agriculture Organization of the UN
Presentations by Johannes Keizer is licensed under a Creative Commons Attribution-
NonCommercial-ShareAlike 3.0 Unported License.
2. “... FAO’s principle task is to work
to ensure that the world’s
knowledge of food and
agriculture is available to those
who need it when they need it
and in a form which they can
access and use ...”
3. There will be generated more
scientific data in the next 5 years
than in the history of humankind
http://aims.fao.org johannes keizer
4. Contribution and Participation in Science
Territory size shows proportion of scientific papers published in 2001 by
authors living there.
Copyright SASI Group (University of Sheffield) and Mark Newman (University of Michigan)
http://aims.fao.org johannes keizer
14. Task 3: working together
? ? ?
How can I get in real time all the specimen data on
useful insects from all people making research on this on
my desktop? How can I share in real time my data with
other colleagues working on that.
http://aims.fao.org johannes keizer
17. The Project: agINFRA
Enforce Webpublishing of Data
Produce linked open data from
all datasets
Use common reference
vocabularies to interlink data
sets
Don’t wait ! Wrap the Legacy
http://aims.fao.org johannes keizer
18. The Infrastructure elements
VocBench RING Tools
vocabulary server
LOD
concepts and entities routemap to information enabled software
triples nodes and gateways
Cloud Data Services LOD Generator
storage for RDF Webservices + APIs triplifier,
to triple stores concept and entity
triples
identifier
http://aims.fao.org johannes keizer
21. Under Construction!!!!!!!
VocBench
VocBench RING Tools
vocabulary server Linked Open Data LOD
AGROVOC
concepts and entities routemap to information enabled software
AgroTagger
triples nodes and gateways
Triplifying AGRIS
Linking Data! Data Services
Cloud LOD Generator
DrupalRDF
storage for front ends for triple stores
Webservices + APIs triplifier,
to triple stores concept and entity
triples
The CIARD R.I.N.G identifier
“AgriVIVO
http://aims.fao.org johannes keizer
22. So…
Where does VIVO fit
in?
http://aims.fao.org johannes keizer
23. Background
Many Agriculture Information
communities, how can we bring
together an international network of
researchers in this domain
A precedent for a community open
source based solution
http://aims.fao.org johannes keizer
24. Many Agriculture Communities
• E-Agriculture site has 7111 members from
150 countries
• CIARD site: 6038 seeded from E-Agriculture
site
• AIMS site has 280 users
• SIDALC has 150+ institutions in 22 LAC
countries
• IAALD has 400+ members in 80 countries
• None of these user communities “talk” to
each other (though there is a lot of overlap
http://aims.fao.org johannes keizer
25. Precedent for Open Source Applications
AgriDrupal – A content management
system based on Drupal with
Agriculture Information Systems
customizations
AgriOceanDSpace – An institutional
repository platform, customized for the
Agriculture domain
http://aims.fao.org johannes keizer
26. How about “AgriVivo”?
An open source semantic web
application, customized for managing
people (and their activities) that work in
the Agriculture domain.
Enabling an International Network of
Agriculture researchers…
http://aims.fao.org johannes keizer
27. AgriVivo
Agri VIVO
Triple Store
AGRIS
E-AGRICULTURE
AIMS
SIDALC
IAALD
http://aims.fao.org johannes keizer
28. AgriVivo: Areas of Work
Multi Language Support
Integration of Agricultural Ontolologies
Development of Harvesters for ingest
of Agricultural documents (AGRIS)
Community Search of AgriVivo Sites
http://aims.fao.org johannes keizer
29. Linking Data
VocBench RING Tools
vocabulary server
LOD
concepts and entities routemap to information enabled software
triples nodes and gateways
Cloud Data Services LOD Generator
storage for RDF Webservices + APIs triplifier,
to triple stores concept and entity
triples
identifier
http://aims.fao.org johannes keizer
41. The VocBench
VocBench RING Tools
vocabulary server
LOD
concepts and entities routemap to information enabled software
triples nodes and gateways
Cloud Data Services LOD Generator
storage for RDF Webservices + APIs triplifier,
to triple stores concept and entity
triples
identifier
http://aims.fao.org johannes keizer
42. The VocBench
http://aims.fao.org johannes keizer
43. VocBench Features
Domain independent
Structure independent (i.e. thesauri, Glossaries,
etc)
Supports RDF (SKOS, SKOS-XL), OWL
Supports collaborative editing
Supports editorial workflow, with user roles
Simple and advanced search
Supports data export: SKOS, Relational format
(MySQL)
http://aims.fao.org johannes keizer
48. LOD Generator/Agrotagger
VocBench RING Tools
vocabulary server
LOD
concepts and entities routemap to information enabled software
triples nodes and gateways
Cloud Data Services LOD Generator
storage for RDF Webservices + APIs triplifier,
to triple stores concept and entity
triples
identifier
http://aims.fao.org johannes keizer
49. AgroTagger
• Does Concept identification in unstructured
texts
• Uses Agrovoc as a controlled vocabulary
• Prototype under testing with excellent
results (entire repository of ICARDA
indexed)
• Will produce in future Structured RDF files
that can be used to link data like “open
Calais”
http://aims.fao.org johannes keizer
52. AGRIS Journal disambiguation
2.644.818 AGRIS records
2.171.113 records are journal records
(82.09%)
1.788.083 journal records have been
covered by the disambiguation process
(82.35%)
14.658 journals have been correctly
disambiguated
~20.000 strings must be examined yet:
they refer to journal’s titles
Triples have been generated:
http://aims.fao.org johannes keizer
53. Triplifying AGRIS (small example)
<?xml version="1.0" encoding="utf-8"?>
<rdf:RDF xmlns:ags="http://purl.org/agmes/1.1/" xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-
syntax-ns#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" xmlns:bibo="http://purl.org/ontology/bibo/"
xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dct="http://purl.org/dc/terms/">
<bibo:Journal rdf:about="http://aims.fao.org/aos/journal/c_b6e4ca85">
<bibo:ISSN>0101-9066</bibo:ISSN>
<bibo:ISSN>0101-9066</bibo:ISSN>
<dct:title><![CDATA[Circular técnica]]></dct:title>
<dct:alternative><![CDATA[Circular técnica (Centro Nacional de Pesquisa de Seringueira e Dendê)]]></dct:alternative>
<dct:alternative><![CDATA[Circular Tecnica - Centro Nacional de Pesquisa da Seringueira e Dende]]></dct:alternative>
<dct:alternative><![CDATA[Circular técnica - CNPSD]]></dct:alternative>
<dct:alternative><![CDATA[Circ. téc.]]></dct:alternative>
<ags:publisherPlace rdf:resource="http://aims.fao.org/aos/geopolitical.owl#Brazil"/>
<dct:publisher><![CDATA[Empresa Brasileira de Pesquisa Agropecuária, Centro Nacional de Pesquisa de Seringueira e
Dendê]]></dct:publisher>
<dct:language>por</dct:language>
<dct:date>1980</dct:date>
<dct:subject rdf:resource="http://aims.fao.org/aos/agrovoc/c_10795"/>
<dct:subject rdf:resource="http://aims.fao.org/aos/agrovoc/c_4650"/>
<dct:subject rdf:resource="http://aims.fao.org/aos/agrovoc/c_32372"/>
<dct:subject rdf:resource="http://aims.fao.org/aos/agrovoc/c_332"/>
<dct:subject rdf:resource="http://aims.fao.org/aos/agrovoc/c_3589"/>
<dct:subject rdf:resource="http://aims.fao.org/aos/agrovoc/c_5556"/>
</bibo:Journal>
http://aims.fao.org johannes keizer
54. The CIARD RING
VocBench RING Tools
vocabulary server
LOD
concepts and entities routemap to information enabled software
triples nodes and gateways
Cloud Data Services LOD Generator
storage for RDF Webservices + APIs triplifier,
to triple stores concept and entity
triples
identifier
http://aims.fao.org johannes keizer
55. The CIARD RING
Roadmap to information nodes and
gateways
Community switchboard to find data
sources
Not only registry, but dynamic
instrument for data linking
http://aims.fao.org johannes keizer
56. RING - Charts and numbers
http://ring.ciard.net
http://aims.fao.org johannes keizer
57. RING – Numbers
http://ring.ciard.net/totals
Number of
documents
potentially reachable
through the services
registered in the
RING.
Types of service
considered:
document
repositories and
bibliographic
databases.
http://aims.fao.org johannes keizer
58. The Infrastructure elements
VocBench RING Tools
vocabulary server
LOD
concepts and entities routemap to information enabled software
triples nodes and gateways
Cloud Data Services LOD Generator
storage for RDF Webservices + APIs triplifier,
to triple stores concept and entity
triples
identifier
http://aims.fao.org johannes keizer
60. Agricultural Information Management Standards
Tools Standards
http://www.ciard.net
http://ring.ciard.net
http://aims.fao.org
Advice http://agris.fao.org Services
http://aims.fao.org johannes keizer
Notas do Editor
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww
Beijing meeting, what I saw in poster sessions
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww
Ifresources are marked up withsemanticallydefined and machinereadableconcepts, they can belinked and mashed up preciselyaswehaveseen in the examplefrom the BBC.In thisexamplewe start withan AGRIS record on Hazardouswaste, whichisindexedwith AGROVOC. Alreadynowwe can easily link to material indexedwithEurovoc, hereanexamplefromEuroLex. If the UNBIS thesaurus wouldberestructuredto a conceptscheme and publishedas LOD, related UN documentscouldbeattachedautomaticallyby the machine.
Ifresources are marked up withsemanticallydefined and machinereadableconcepts, they can belinked and mashed up preciselyaswehaveseen in the examplefrom the BBC.In thisexamplewe start withan AGRIS record on Hazardouswaste, whichisindexedwith AGROVOC. Alreadynowwe can easily link to material indexedwithEurovoc, hereanexamplefromEuroLex. If the UNBIS thesaurus wouldberestructuredto a conceptscheme and publishedas LOD, related UN documentscouldbeattachedautomaticallyby the machine.
Ifresources are marked up withsemanticallydefined and machinereadableconcepts, they can belinked and mashed up preciselyaswehaveseen in the examplefrom the BBC.In thisexamplewe start withan AGRIS record on Hazardouswaste, whichisindexedwith AGROVOC. Alreadynowwe can easily link to material indexedwithEurovoc, hereanexamplefromEuroLex. If the UNBIS thesaurus wouldberestructuredto a conceptscheme and publishedas LOD, related UN documentscouldbeattachedautomaticallyby the machine.
Ifresources are marked up withsemanticallydefined and machinereadableconcepts, they can belinked and mashed up preciselyaswehaveseen in the examplefrom the BBC.In thisexamplewe start withan AGRIS record on Hazardouswaste, whichisindexedwith AGROVOC. Alreadynowwe can easily link to material indexedwithEurovoc, hereanexamplefromEuroLex. If the UNBIS thesaurus wouldberestructuredto a conceptscheme and publishedas LOD, related UN documentscouldbeattachedautomaticallyby the machine.
How does this work: A resource is connected with each concept URI in the web. The concepts between three vocabularies are having same literal which is connected with owl:sameAS/exactMatch relationship. As we are speakingaboutthesauri and notontologieswekept the relation tobechosenpurposelyvague. The conceptscouldbematchedwithowl:sameAS or the termscouldbematcheswith SKOS:exactMatch. A lotofdiscussion on thisisongoing
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww
- All links are checked by a domain expert.
Thisis the AGROVOC SKOS modelthathasbeendeveloped and decided in April 2010 under activecollaborationfrom Tom Baker, whowasmemberof the W3C SKOS workinggroup.
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww
My team in collaborationwith the IndianInstituteofTechnology in Kanpur isdeveloping a similar service foroursubject area.
Open Calais isverygood in thoseareas, in whichtheyhavetheirownelaboratedconceptschemeagainstwhich the texts are analyzed: “Places”, “Persons”, “Business Processes” , “IndustryTerms”, butitisweak in the specifictopicanalysis, whattheycall “social tags”
AgroTaggerstilllacksmanyof the sophisticated featuresof “Open Calais” ,butismuch, muchbetter in the subjectanalysisof the text
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww
the chart on the homepage representing the distribution of services across "service types" (http://ring.ciard.net) (implemented with support from John Fereira); the geographic map on the homepage representing the geographic distribution of services;
a first attempt to provide some aggregated data on the number of contents / resources potentially reachable through the services registered in the RING: http://ring.ciard.net/totals
The mainintegrationworksthroughcommonsemanticsCore ofagINFRAtechnologyisaLODstoreofsharedencodedknowledgeorganizationsystemsan automaticmarkupto link structuredandunstructureddatasourcesthroughthissharedKnowledgeOrganizationsystemsSharing withinthe R.I.N.G.Partner registertheirservices, notechnicallimitationLOD – Wrapper for all participatingInstitutionsFor all registered services a „triplificationwrapper“ will besetupThe triplifierworkswith „agConceptsandagIdentities“ tocreatelinkeddataSteadilygrowing LOD ecosystemThe agINFRA LOD ecosystemoffers Webservices forthewww