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

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

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

Advance Query Workflow Quick Link To AQ Advance Query Dashboard

Adding Query Filters

Operators and Functions

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

Add Temporal Filter

Get Count for Unsaved Query

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

Redefine View for Query Result

Create Lists

Save Query for Future Reuse

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

View Query Run Log

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

Importing a Query

Organizing Queries

Helpful Links and Documentation Demo: Training Videos:

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