HCLSIG BioRDF Subgroup/Meetings/2006-01-26 F2F

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Seeding the Semantic Web

Date: January 26, 2006

Participants: Olivier Bodenreider, Kei Cheung, Roger Cutler, Brian Gilman, Joanne Luciano, Brian Osborne, Alan Ruttenburg, Matt Shanahan, Susie Stephens, Charles Tilford.

Project Goal: To build a life sciences demo using RDF and OWL to get a stronger understanding as to the work required, to explore the effectiveness of current tools, and to document our finding to help accelerate the adoption of the Semantic Web by others.

Demo:

  • The demo will primarily take advantage of data sets from the NCBI. However, additional data sets will be required with time as the ultimate goal is to build a demo that spans from ‘bench to bedside’.
  • The demo will focus on the domain area of neuroscience, in order to be able to build upon the ongoing work in Scientific Commons and SWANS.
  • The main focus of the demo is on the integration of many data sets, although scalability is also of interest.

Stage 1 (3 month goals)

  • Identify the initial data sources to be used in the demo.
  • Explore additional data sources that would be required for the demo to span ‘bench to bedside’.
  • Learn about GRDDL, SPARQL, OWL, etc.
  • Increase knowledge of neuroscience.
  • Set up a Wiki for communication.

Stage 2 (6 months goals)

  • Transform data into RDF from Word, Excel, XML, Relational, etc.
  • Analysis of semantic requirements (connect to ontology sub-group).
  • Move from screen scraping to an API.
  • Create documents that describe work undertaken, and observations.

Stage 3 (12 months goals)

  • Use ontologies with the demo.
  • Answer scientific questions and hopefully glean new scientific insights through using the demo.
  • Validate the effectiveness of the data integration.

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