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Breaking Barriers in Data Integration: Engaging Biologists through the Moby Platform

This presentation discusses the integration of biologists into everyday data practices using the Moby platform, emphasizing its concept, application, and future. Examples include the Seahawk and NCBI's sequence alignment services. The talk covers partnership and local infrastructure requirements, motivation techniques for biologists, collaborative work distribution, and user engagement methods. Special attention is given to training capabilities, responsibility among service providers, and shared resources. Innovations like SAWSDL and bioinformatics tools will also be explored to enhance data sharing and service utilization.

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Breaking Barriers in Data Integration: Engaging Biologists through the Moby Platform

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Presentation Transcript

  1. Breaking Barriers:getting biologists involved in everyday data integration using Moby Paul Gordon Genome Canada Bioinformatics Platform University of Calgary, Canada

  2. Outline • concept, usage, future • Getting Biologists Involved: Seahawk &

  3. DNASequence NCBI_gi Sequence_Alignment

  4. Core Moby Service Providers in Europe

  5. Founding partner

  6. SADI In A Nutshell

  7. As OWL AxiomsHomologousMutantImage is owl:equivalentTo { Gene Q hasImage image P Gene Q hasSequence Sequence Q Gene R hasSequence Sequence R Sequence Q similarTo Sequence R Gene R = “my gene of interest” }

  8. Mobify the World.

  9. Paul’s Maxims • You cannot get rid of work • You can: • Distribute work amongst parties with vested interests & required capabilities • Avoid redoing the same work repeatedly

  10. Agenda • Motivation • Audience • Mechanism

  11. Larry Wall’s “Virtues of a Programmer” HUBRIS IMPATIENCE LAZINESS

  12. Audience Willing to take training Capable but no hubris Taverna self-starters Amoeba God Self-perception of computer skills

  13. Man’s Prayer Bioinformatician • I’m a man… • But I can change… • If I have to… • I guess…

  14. Take the output of the U of C service and send it to iHOP, then send its output to DDBJ’s service…

  15. myGRID RDF

  16. Semantic Annotations for WSDL Moby SAWSDL

  17. bioxml.info

  18. MOB Rule Syntax >gi|12434353 glycerol kinase cgatcagcatcgactagcatcgactatttgctatcat cagctacgatcagctacgactac…

  19. Shared Responsibility • Service Providers • Proxy Provider • Third Party Developers • Biologists Tu deviens responsable pour toujours de ce que tu as apprivoisé.

  20. SAWSDL Required Infrastructure Calgary Anywhere Compute Cloud (e.g. Calgary or Google App Engine) Anywhere Calgary (Sun v240)

  21. To Do • Formal user studies • HTML Form wrapping • Enactment portal • Biocatalogue? If you can not measure it, you can not improve it. – Lord Kelvin

  22. Acknowledgements

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