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MOSS in the Translational Science Laboratory

Anand Kolatkar, Joshua Kunken The Kuhn-Stevens Laboratory, The Scripps Research Institute. MOSS in the Translational Science Laboratory. Translational Science – What is it ?. Bench-top to Bedside Tied to Clinical Samples

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MOSS in the Translational Science Laboratory

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  1. Anand Kolatkar, Joshua Kunken The Kuhn-Stevens Laboratory, The Scripps Research Institute MOSS in the Translational Science Laboratory

  2. Translational Science – What is it? • Bench-top to Bedside • Tied to Clinical Samples • Multi-disciplinary: Cell Biologists, Physicists, Pathologists, Oncologists

  3. Lab FOCUS Cancer Biology Structural Biology • Protein crystal growth – on same slide • Crystal diffraction data • 3D atomic structures • Optical microscopy of samples – on same slide • Clinical data

  4. Lab NEEDS

  5. Web-based Portal System • Why MOSS (SharePoint)? • Fast implementation • Versatile functionality • Customizable • Low maintenance overhead • Integrates easily with Word and Excel SharePoint

  6. MOSS Features • Portal with built-in components • Configurable/extensible • SQL Server backend • API for data access • Secure access via Active Directory and SSL

  7. Web-based Portal System • SharePoint in the Kuhn-Stevens Lab • KS Lab & Projects Use SharePoint Sites • Other Software Can Leverage Data stored using MOSS SharePoint

  8. Data Flow and Management Kuhn-Stevens Laboratory Collaborators Active Directory MOSS 2007 Server Synchrotrons Server Farm SSRL APS ALS Automated Imagers RAID Arrays Formulatrix LCP FRAP

  9. Data Driven Research – Terabytes not Petabytes And growing… Structural biology  manage ~2TB of data ~18 Gigabytes/ slide imaging session  for 20 slides/week (0.35 TB)

  10. Data Organization/ Management

  11. Lab/ Document Management • Grant and manuscript writing (collaborative writing and versioning) • Scheduling of facilities/equipment

  12. Dissemination/ Outreach • Research must be shared within lab group and with collaborators • Research results must be shared with scientific community and the lay community

  13. Dissemination/ Outreach

  14. Dissemination/ Outreach

  15. Dissemination/ Outreach • http://physicsoncology.org

  16. Dissemination/ Outreach • http://c-me.scripps.edu

  17. Have collaborators throughout the US and abroad • SharePoint and Smart Client Applications • Collaboration ? ! • Enable simple access to data • Maintain one data source (avoid multiple versions of data)

  18. Internal Lab Portal

  19. Access Routes Web Browser SharePoint 2007 Client Application Browse over the network

  20. Access Routes Web Browser SharePoint 2007 Client Application Browse over the network -C# programming language -.NET 3.5 Framework -Windows Presentation Foundation (WPF)

  21. Access Routes PowerShell SharePoint 2007 Outlook Mobile Phone

  22. Internal Lab Smart Client Applications CTS 2.0 Construct Tracking System KS Crystal Tracking System

  23. CTS: Construct Tracking System

  24. CTS: Extended View

  25. Where Does The Data Reside?

  26. Who gets access to what? SharePoint and Active Directory provide Role Based Access Control.

  27. PowerShell and MOSS Data from SharePoint can be queried via scripting language.

  28. How do we keep track of expt results? Data from CTS is linked to data from screening experiments

  29. Crystal Screen Tracking

  30. HPC and Internal Experiments

  31. HPC and Construct Data

  32. Have collaborators throughout the US and abroad • SharePoint and Smart Client Applications • Collaboration ? ! • Enable simple access to data • Maintain one data source (avoid multiple versions of data)

  33. C-ME

  34. C-ME Features

  35. C-ME WPF

  36. C-ME WPF WPF Smart Client Application SharePoint 2007 Server C-ME Windows Application MOSS Web Pages MOSS Database launches Custom 3D Rendering Library Custom Business Layer Library Custom Site Creation Web Services WPF USES MOSS Web Services .NET Framework 3.0 Entity Site Structure Site/ Content Structure Automatically Generate Team Sites (root) Research Site / Collaboration Portal Root Entity Document Library (.pdb files, etc.) Entity Sub-site/ Team Site Project Sub-site / Team Site Annotation Document Library (contains context metadata)

  37. DEMO

  38. Future Plans

  39. Conclusion/ Acknowledgements • Peter Kuhn & Ray Stevens • KS Lab • ATCG3D/NIH • U54GM074961, HHSN 266200400058C, and • R01CA11359 • Interknowlogy, LLC & Microsoft Corp

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