1 / 24

Cancer Data Standards Repository (caDSR) Tools NCICB Jamboree 2003

Cancer Data Standards Repository (caDSR) Tools NCICB Jamboree 2003. Denise Warzel Manager, Informatics Data Standards NCICB Infrastructure Team. Outline. Team Members caDSR Tools Overview Tool “walk-around” Q & A. ScenPro Bill McCurry Mike Gately Ken Sims Mark Swenholt

rachel
Download Presentation

Cancer Data Standards Repository (caDSR) Tools NCICB Jamboree 2003

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Cancer Data Standards Repository (caDSR) Tools NCICB Jamboree 2003 Denise Warzel Manager, Informatics Data Standards NCICB Infrastructure Team

  2. Outline • Team Members • caDSR Tools Overview • Tool “walk-around” • Q & A caDSR Tools Jamboree 2003 D. Warzel

  3. ScenPro Bill McCurry Mike Gately Ken Sims Mark Swenholt Jennifer Brush Tom Phillips Mike Holck Smita Hastak Oracle Christo Andonyadis Ram Chilukuri Judy Pai Prerna Aggarwal Hyun Kim caDSR Tools Team caDSR Tools Jamboree 2003 D. Warzel

  4. Tools to Develop, Access and Consume Common Data Elements (caDSR content) Leverage ISO 11179 Metamodel Common Data Elements (CDEs) caBIO Objects ???? Leverage and Integrate other NCICB tools and projects Purpose caDSR Tools Jamboree 2003 D. Warzel

  5. caDSR Tools “Suite” • Curation Tool • Browser • Review Tools • Case Report Form (CRF) Loader • Compliance Review Tool (CRT) • CDE Compliance Review Response Tool (CCRR) • XML Support • Schemas, Example Instances, Semi-automated “loader” caDSR Tools Jamboree 2003 D. Warzel

  6. General Principles • ISO 11179 “Building Blocks” • Data Element Concept • Object Class (something real) • Property (something about something real) • Qualifier(s) (adjective) • Value Domain • Representation Class (count, measure, etc) • Data Element • Data Element Concept • Value Domain caDSR Tools Jamboree 2003 D. Warzel

  7. “Walk-around” CDE Curation Tool “Develop” • Release 1.1 • Data Elements • Data Element Concepts • Value Domains • SEARCH • CREATE • EDIT caDSR Tools Jamboree 2003 D. Warzel

  8. Search • Select/De-select Columns • Click Column headings to Sort

  9. Common Functions Create Create: New New Using Template New Version caDSR Tools Jamboree 2003 D. Warzel

  10. Data Element Concept Create Object Class Property Object Qualifier Property Qualifier caDSR Tools Jamboree 2003 D. Warzel

  11. Data Element Concept Create Verify Long Name and Preferred Name AUTOMATICALLY FILLED IN caDSR Tools Jamboree 2003 D. Warzel

  12. Data Element Concept Create Validation Status caDSR Tools Jamboree 2003 D. Warzel

  13. (EVS Link) Data Element Create Select Data Element Concept Value Domainor “Create New” caDSR Tools Jamboree 2003 D. Warzel

  14. Component Validation Create caDSR Tools Jamboree 2003 D. Warzel

  15. CDE Curation Tool • Future • Improve Usability • “Search” for building blocks vs “List” • Manage Blocks of CDEs • Upload, download, “global change” • Seamless EVS Integration • Expand links for “word lists” development • E.g. Object Class, Property, Qualifier • Use and “Suggest New” vocabulary caDSR Tools Jamboree 2003 D. Warzel

  16. “Context Tree” Window “Search Criteria” Window “Access” CDE Browser

  17. “Access” CDE Browser “Search Results

  18. D ownload: Excel, XML CDE Browser “Access” Filter/Search Criteria

  19. Setup/Prep form metadata (questions and answer lists) • Algorithmic Matching • “Data Element-ize” CRF Content End user validation and acceptance Review Tools “Consume” • Case Report Form (CRF) Loader • Compliance Review Tool (CRT) • CDE Compliance Review Response Tool (CCRR) caDSR Tools Jamboree 2003 D. Warzel

  20. Is measurable disease present? Yes No “Consume” CRF Loader Valid Values List Question:

  21. CDE Curation Tool “Consume” Compliance Review • Match Existing CDE: • Partial Match? • Exact Match? • Create New CDE? • Meets user needs? CRT CCRR caDSR Tools Jamboree 2003 D. Warzel

  22. XML Support “Develop” “Access” “Consume” http://ncicb.nci.nih.gov/xml • “Heavyweight” • ISO 11179 Repository to Repository • ISO 11179 Compliance • caDSR Validation • Sample instances • XML Loader • “ISO-Light” • Data Element Centric • “Only” what you need to know to use a data element – and nothing more • “API” • Under development http://ncicb.nci.nih.gov/cdebrowser caDSR Tools Jamboree 2003 D. Warzel

  23. Operating Environments • CDE Browser • Oracle 9i Application Server • CDE Curation Tool • Jakarta Tomcat • Case Report Form (CRF) Loader • Visual Basic, MS Excel GUI, Oracle 8i Client • Compliance Review Tool (CRT) • Visual Basic, MS Excel GUI, Oracle 8i Client • CDE Compliance Review Response Tool (CCRR) • Java, JSP, Java Beans, Oracle 9i Application Server caDSR Tools Jamboree 2003 D. Warzel

  24. Questions? • CDE Curation Tool • http://ncicb.nci.nih.gov/cdecurate • CDE Browser • http://ncicb.nci.nih.gov/cdebrowse • CCRR: • http://cbioapp201.nci.nih.gov:5080/ccrr/index.jsp • XML • http://ncicb.nci.nih.gov/xml • WarzelD@mail.nih.gov • 303-722-9446 caDSR Tools Jamboree 2003 D. Warzel

More Related