RDF, Ontologies and Meta-Data Workshop

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Workshops related to exploiting diverse sources of scientific data

Contents 1 Overview 2 Final Agenda 3 Resources mentioned during the workshop 4 Questions and Answers raised during the workshop 5 Directions and Further Information

Overview

Meta-data is a recurring theme across scientific domains as the most important thing that needs to be captured in order that data may be integrated. This is particularly important when data is to be used for purposes unforeseen when the data was collected and to ensure longevity in the data. Closely associated with meta-data are ontologies giving semantics to the meta-data and or data. Ontologies then may help in the automation of the integration process and improve the accuracy with which integration is undertaken.

Due to the interest in RDF, a technology central to the semantic web and therefore potentially of importance in Exploiting Diverse Sources of Scientific Data, this workshop will commence with a tutorial on RDF by Oracle.

During this workshop participants will get the chance to learn about RDF, and hear about users experiences in building RDF repositories and investigate some of the issues in exploiting diverse sources of scientific data using RDF.

The workshop will continue by exploring the promise of meta-data and ontologies for accessing and integrating data. First we will hear about experiences from projects using these technologies to access and integrate scientific data. This will help determine the problems we think metadata and ontologies will solve for scientists. Discussion might explore where and when metadata should be used, the difference between metadata and data and when meta data becomes as complicated as the original data and might introduce the problems we were trying to solve. We then hope to explore what we know are existing problems in capturing, storing and interpreting metadata and ontologies and how these might be addressed and concluding with a summary of the reality of meta-data and ontologies as an aid to data integration.

We hope to have speakers from a range of scientific domains all with some experience of designing, implementing and supporting meta-data or ontology based systems for data integration. Particularly welcome will be accounts of empirical evaluation work. If you are interested in speaking at the meeting or expressing interest in attending please contact Jessie Kennedy.

Final Agenda

7th June

• 8.30 Registration/Coffee
• 9:00 Welcome and Introduction to the workshop - Malcolm Atkinson, Jessie Kennedy
• Seminar on RDF and Oracle's RDF triple store - Jayant Sharma, Oracle; Jürgen Angele Ontoprise.
• 10:30 Tea/Coffee
• 11:00 Seminar contd.
• 12:30 Lunch
• 13:30 Evaluation/Experiences of RDF triple stores: Chair: Peter Robson
  • Oscar Corcho, Manchester University - 'OntoGrid and S-OGSA: Semantic Grid requirements for triple stores'
  • Dave De Roure, Southhampton University - 'The Chemistry Experiment: Building a Semantic DataGrid over multiple stores'
  • Steven Perry/Rob Gales, University of Kansas - 'DiGir 2 RDF store'
  • Akiyoshi Matono, AIST - Query Processing for Distributed RDF Databases Using a Three-dimensional Hash Index
  • Benjamin H Szekely, IBM - 'Features of an Enterprise-ready Triple Store: Replication, Notification, Transactions, Security and Named Graphs'

• 15:30 Tea/Coffee
• 16:00 Discussion session: 'Scalability of RDF' Chair: Greg Ricardi

8th June

• 9.00
• Semantic Mediation and Architectures - Chair: Andy Law
  • Asunción Gómez Pérez/Miguel Esteban Gutierrez, Universidad Politécnica de Madrid - 'WS-DAIOnt-RDF(S): A framework for specifying ontology access services for RDF(S) ontologies'
  • Isao Kojima, AIST - 'OGSA-DAI-RDF and its ontology interface'
  • Said　Mirza, AIST - 'A Semantic Matchmaker for RDF/OWL-based Service Repositories: Building a Tool for OWL-S Service Discovery and Composition'
• 10:30 Tea/Coffee
• Semantic Mediation and Architectures - Chair: Oscar Corcho
  • Shawn Bowers, University of California, Davis - 'Semantic Mediation in SEEK/Kepler: Exploiting Semantic Annotation for Discovery, Analysis, and Integration of Scientific Data and Workflows'
  • Bryan Lawrence, CEH, - 'Distributed Data, Distributed Governance and Distributed Vocab: How the NERC DataGrid is helping data providers deliver shared services'
• 12:00 Discussion on architectures for semantic mediation of data

• 13:00 Lunch

• 14:00
• Experience of Building/Using Ontologies - Chair: John Watkins
  • Midori Harris, EBI - 'Developing and Using the Gene Ontology'
  • Dawn Field, CEH - 'Genomics Standards Consortium Ontology - requirements and experiences'
  • Trevor Paterson/Andy Law, Roslin Institute - 'Ontologies in ComparaGrid'
  • Albert Burger, MRC, - 'Experience with anatomy ontologies'
• 15:30 Tea/Coffee
• 16:00
• Experience of Building/Using Ontologies - Chair: Roger Hyam
  • Dave Thau, University of California, Davis - 'Reasoning about conflicting expertise.'
• Discussion on recurrent scenarios of building and using ontologies.
  • What are the pros and cons?
  • What are the barriers?
  • What's the way forward?

9th June

• 9:00
• Meta-Data, LSIDs, Ontologies for Schema/Data Integration - Chair: Shawn Bowers
  • Susie Stephens, Oracle - 'Applications of Semantic Web Technology in the Life Sciences'
  • Richard Ostler, CEH - 'Metadata culture on the UK National Biodiversity Network Gateway'
  • Benjamin H Szekely, IBM - 'Providing RDF Metadata for Biological Databases using LSID-based Semantic Overlays'
  • Roger Hyam, TDWG, RBGE Edinburgh/Donald Hobern, GBIF - 'LSIDs and RDF in GBIF/TDWG'

• 10:30 Tea/Coffee
• Meta-Data, LSIDs, Ontologies for Schema/Data Integration - Chair: Albert Burger
  • Roger Moore, CEH - 'HarmoniRiB - a database design for uncertain multi-disciplinary data required for the Water Framework Directive'
  • Daniele Turi, Univ. of Manchester - 'LSIDs in Taverna'
  • Richard Wadsworth, CEH - 'Using Metadata to Link Uncertainty and Data Quality Assessments'
  • Louisa Casely-Hayford, CLRC - 'Ontologies & Ontology tools for the CCLRC Neutron & Muon Facility'
• 13:00 Lunch

• 14:00
• Discussion session: Outstanding issues regarding RDF, Ontologies and Meta-data, Chair: Jessie Kennedy

• Plenary feedback and discussion

All Day

• Breakout Group: DAIS RDF F2F meeting

Resources mentioned during the workshop

Resources related to the RDF, Ontologies and Meta-Data Workshop

Questions and Answers raised during the workshop

Questions related to the RDF, Ontologies and Meta-Data Workshop

Directions and Further Information

Information and Directions to the eScience Institute.