Sponsored by the University of Southampton Agenda – Day Two 08.45-09.00 - Welcome 09.00-10.00 - myExperiment: towards Research Objects - David de Roure 10.00-10.30 - Break 10.30-11.00 - HCLS Strategy 11.00-11.30 - Integration Points across Tasks 11.30-12.00 - Conference/Paper Outreach Opportunities 12.00-12.30 - Grant Opportunities 12.30-13.30 - Lunch 13.30-15.30 - Terminology Discussion 15.30-16.00 - Wrap Up Sponsored by the University of Southampton

Strategy for Health Care and Life Sciences Interest Group

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

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

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

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

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

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

Electronic Health Records

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

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?

Integration across tasks

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)

‘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)

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

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