1. Open Specimen Query and Reporting Snehil Gupta Center For Biomedical Informatics Washington University in St. Louis

2. Agenda New Features in Advance Query Basic Workflow Creating Specimen Lists Sharing and Organizing Scheduling Reports

3. New Features in Advance Query Intuitive user-interface Does not require knowledge of underlying data model and object associations More functions and operators to build complex queries (Intersection, Not, Hierarchical, etc.) Participant and Specimen Count Aggregating and Pivot Tables Query Export and Import

4. Advance Query Workflow Quick Link To AQ Advance Query Dashboard

5. Adding Query Filters

7. Operators and Functions

8. AND: Participants who are male AND race is Caucasian OR: Tissue specimens that have frozen OR fixed event INTERSECTION: Participants from whom tissue specimen has been collected at Pre-Surgery and tissue and blood specimens have been collected at Surgery timepoint. NOT: Participants who have not consented. HIERARCHICAL: Participants from whom DNA specimens have been derived from tissue, or body fluid specimens. PARANTHESIS: Logical grouping of query filters

9. Add Temporal Filter

11. Get Count for Unsaved Query

12. View Query Results * By Default, Query Result Displays Participant Columns Only

13. Redefine View for Query Result

14. Create Lists

15. Save Query for Future Reuse

16. Edit Query Download Query Definition View Query Run Log Delete Query Saved Query Functions

17. View Query Run Log

18. Exporting a Query Edit Query Download Query Definition View Query Run Log Delete Query

19. Importing a Query

20. Organizing Queries 1. 2. 3. 4. 5. 6.

21. Helpful Links and Documentation http://nextgen.openspecimen.org/openspecimen https://catissueplus.atlassian.net/wiki/display/CAT/AQ+Video+Tutorials Demo: Training Videos:

22. Query Examples Query 1: Find all participants registered on a specific study and have consented Query 2: Find all tumor breast tissue specimens from female participants with age >35 Query 3: Find all specimen from a specific study that were received in damaged condition Query 4: Find all DNA specimens derived form any tissue sample Query 5: Find all tissue specimens that have either fixed or frozen event Query 6: Find all blood specimens that were not spun within 30 minutes of collection