Dynamic Map-Based Visualization Tools for Complex Inventory/Freezer Management
5/23/2014 www.biolincc.nhlbi.nih.gov
Open Source Informatics Developed by NHLBI BioLINCC
Joseph Krzystan1, Carol A. Giffen1, Elizabeth Wagner2, John Adams1, Leslie Carroll1
1. Information Management Services, Inc. Calverton MD, United States 2. NIH/NHLBI, Bethesda MD, United States
NHLBI-BioLINCC
Established by NHLBI to provide IT solutions supporting the
NHLBI Biorepository
63 historical collections
~4.1 million biospecimens
Data-driven management of a dynamic inventory
Maximize utility of available data
Efficient specimen retrieval and storage
Large scale incoming/outgoing shipments
Inventory improvement initiatives (consolidation, freezer retirement…)
Facilitating repository functions demands continuous
evaluation across all levels of the inventory
5/23/2014 www.biolincc.nhlbi.nih.gov
Traditional Inventory Management
Reports from LIMS
Shipment Manifests
Custom reports
Holistic approach requires a full-scope view of task at hand: 1. Where are the targets in relation to one another? 2. How densely packed are they and across how many containers? 3. What is the most efficient path to task fulfillment?
5/23/2014 www.biolincc.nhlbi.nih.gov
Essential sources of information but multiple sources/reports are generally needed to answer the large scale and big picture questions with the greatest impact
Inventory Visualization Tool
Developed to expand on existing reporting capability and expedite inventory survey and assessment efforts
Query based: Visualize and evaluate entire repository or specific selections/containers/studies
Implemented on top of existing LIMS database using open-source software
Existing LIMS database
http://www.bsisystems.com
Python – Django: Framework
https://www.djangoproject.com
Javascript - D3.js: Presentation
http://d3js.org
5/23/2014 www.biolincc.nhlbi.nih.gov
Visualizing the Inventory
5/23/2014 www.biolincc.nhlbi.nih.gov
Use Case #1 – Pulling specimens for a request
Using spatial data to assess full-scope of task
5/23/2014 www.biolincc.nhlbi.nih.gov
Summary of results
Use Case #2 – Exploring collection density and available space
Containers with few specimens highlighted
Identify empty space
5/23/2014 www.biolincc.nhlbi.nih.gov
Identify freezer space not currently configured in LIMS or sparsely populated by specimens
Enable rapid assessments for consolidation at a box, rack, or freezer level
Mouse over containers for details
Use Case #3 – Study specific examination and consolidation
Used to rapidly identify storage patterns across collections
Evaluation of selection as percentage of container facilitates bulk movements
5/23/2014 www.biolincc.nhlbi.nih.gov
Visualizing by absolute count Visualizing by percent of container
Expedited the design of a rack level culling initiative of ~1 million specimens
Looking ahead
Integration with interactive repository building layout detailing physical locations of freezers
Expand as requirements arise and new applications are discovered
Tool is only limited by available data
Pilot/Proof of Principle phase of tool
5/23/2014 www.biolincc.nhlbi.nih.gov
Acknowledgements
5/23/2014 www.biolincc.nhlbi.nih.gov
Kathi Shea Caroline Anderson Leah Marchesani
Lisbeth Welniak Kevin Meagher and the BSI Team
Questions/Comments?
Contact us at: [email protected]