exploration of a data landscape using a collaborative linked data framework
DESCRIPTION
In Proceedings of the The Future of the Web for Collaborative Science, WWW2010 (Raleigh, North Carolina, April 26, 2010)TRANSCRIPT
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Exploration of a Data Landscape using a Collaborative Linked Data Framework
Laurent Alquier, Project Lead, Informatics CoE
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Scientists are looking for answers to translational questions
Background images from Flickr - CC Share Alike 2.0
Basic Research
Prototype Design or Discovery
PreclinicalDevelopment
Clinical DevelopmentFDA Filing,
Approval & Launch Prep
Translational Research
Critical Path Research
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Instead they research how to find and access data.
Which data source should I choose ? Can I access it ?Who should I talk to ?
Scientists want to do Science, not Data Management.
Which interfaces are available ?
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knowIT helps scientists and IT manage what they know about Information Systems.
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Collaborative cataloging of data sources
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Structured data inside wiki pages
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Advantages of Semantic MediaWiki (SMW)
Wiki pages are subjects for Semantic annotations (triples : page – property – value)
MediaWiki knowledge management tools
Many ways to input and output content.
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Provide a flexible integrative data layer
•Linked Data concepts can be used for flexible data integration of internal and external sources of disparate data
Enable scientists to answer novel translational questions
•Linked Data queries support diverse translational scientific questions
Linked Data Pilot for Neuroscience
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Overview of the Linked Data Framework
RDFRDF CSVCSV XMLXML RDBMS
RDBMS DocsDocs
RDB2RDF mappingRDB2RDF mapping TMTM
J&JOntol.J&J
Ontol.Data
catalogData
catalog
Data browser &Visualization
OntologyCuration
J&JRDFJ&JRDF
SemanticWiki
SPARQLSPARQL
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Reviewing W3C’s Translational Medicine Ontology (TMO) as a base for J&J Ontology
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Data Source discovery•Provides framework with provenance information
Resource discovery•Extracts relationships between concepts across data sources
SPARQL Querying•Constructs and captures queries, parses results
Inferencing•Pulls pre-constructed rule sets hosted in server directory
C# API allows programmatic abstraction of….
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Ask questions using federated queries
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Integration with analytical tools
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Improved enterprise search
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Analysis of data sources content
Relfinder
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Visualization of relationships between data sources
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Next steps
Automation and integration with existing ontologies
Enable self-describing data sources
Dynamic, layered map of data landscape
Incorporate additional data sources
Drive broader awareness and adoption of the tool
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We would like to thank current and past contributors for their patience, ideas and support :
– Tim Schultz– Susie Stephens – Dimitris Agrafiotis– Rudi Verbeek– John Stong– Joe Ciervo– Keith McCormick
Acknowledgements