1. Sponsored by the University of Southampton
Agenda – Day Two
Welcome
myExperiment: towards Research Objects - David de Roure
Break
HCLS Strategy
Integration Points across Tasks
Conference/Paper Outreach Opportunities
Grant Opportunities
Lunch
Terminology Discussion
Wrap Up
Sponsored by the University of Southampton

2. Strategy for Health Care and Life Sciences Interest Group

3. Group Activities
Document use cases to aid individuals in understanding the business and technical benefits of using Semantic Web technologies
Document guidelines to accelerate the adoption of the technology
Implement a selection of the use cases as proof-of-concept demonstrations
Develop high-level vocabularies
Disseminate information about the group’s work at government, industry, and academic events

4. Accomplishments Technical Outreach HCLS KB hosted at 2 institutes
Linked Open Data contributions
Demonstrator of querying across heterogeneous EHR systems
Integration of SWAN and SIOC ontologies for Scientific Discourse
Outreach
Conference Presentations and Workshops:
Bio-IT World, WWW, ISMB, AMIA, C-SHALS, etc.
Publications:
Proceedings of LOD Workshop at WWW 2009: Enabling Tailored Therapeutics with Linked Data
Proceedings of the ICBO: Pharma Ontology: Creating a Patient-Centric Ontology for Translational Medicine
AMIA Spring Symposium: Clinical Observations Interoperability: A Semantic Web Approach
BMC Bioinformatics. A Journey to Semantic Web Query Federation in Life Sciences

5. Misc from yesterday We can also search for workflows (BioRDF)
How do we represent an experiment?
Continued confirmation of a desire to integrate and consolidate across tasks (and projects).
Large number of collaborations and reuse

6. Semantic Web: Strengths
Business
Trends all require more flexibility, and better integration and sharing of data
Technology
Complimentary technologies are gaining considerable traction
Key Semantic Web standards are mostly in place
Linked Data has raised awareness and understanding of the Semantic Web

7. Semantic Web: Opportunities
Business
Bridging divide between genomics and the clinic
Interacting with domain focused standards organizations
Technology
Federated query
Easy to use interfaces
Alignment with other technologies

8. Technology Trends Cloud computing Security, Identity SOA Web 2.0
Security and Identity
SOA
Web 2.0 / social networking / user contribution
Semantic Web / Linked Data

9. Electronic Health Records

10. Translating across domains
Translational medicine – use cases the cross domains
Link across domains and research:
What are the links?
gene – transcription factor – protein
pathway – molecular interaction – chemical compound
drug – drug side effect – chemical compound

11. Strategic areas Translational medicine – use cases the cross domains
Integration points: integrating genomics, proteomics, assay
Biomarkers
Other accomplishments to aim for?
What does your organization want?
What do you want?

12. Integration across tasks

13. Current Task Forces BioRDF – integrated neuroscience knowledge base
Kei Cheung (Yale University)
Clinical Observations Interoperability – patient recruitment in trials
Vipul Kashyap (Cigna Healthcare)
Linking Open Drug Data – aggregation of Web-based drug data
Chris Bizer (Free University Berlin)
Pharma Ontology – high level patient-centric ontology
Christi Denney (Eli Lilly)
Scientific Discourse – building communities through networking
Tim Clark (Harvard University)
Terminology – Semantic Web representation of existing resources
John Madden (Duke University)

14. ‘Tasks’ in the task forces
Search – How can we share data and *queries*?
Storage – How can we federate across our tasks?
Annotation – How can we share new knowledge that is added (aTags, hypothesis in SWAN, workflows)

15. What do we want to share and find?
ontologies
terminologies
assertions using (see above)
workflows
..[fill in]

17. Conferences/Grants/Outreach
Conferences: SWAT4LS in Amsterdam end Nov, back to back with HCLS F2F?