Journal
MEDICAL IMAGING 2021: IMAGING INFORMATICS FOR HEALTHCARE, RESEARCH, AND APPLICATIONS
Volume 11601, Issue -, Pages -Publisher
SPIE-INT SOC OPTICAL ENGINEERING
DOI: 10.1117/12.2581074
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Funding
- Leona M. and Harry B. Helmsley Charitable Trust [G-1903-03793]
- NSF CAREER [1452485]
- National Center for Advancing Translational Sciences [2 UL1 TR000445-06]
- National Institute of Diabetes and Digestive and Kidney Diseases [R01_DK103831]
- Department of Veterans Affairs [I01BX004366, I01CX002171]
- NIH [P30DK058404]
- VICTR CTSA award from NCATS/NIH [ULTR000445]
- Vanderbilt University Medical Center
- Patient-Centered Outcomes Research Institute (PCORI) [CDRN-1306-04869]
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The Gut Cell Atlas (GCA) initiative aims to create a reference platform for understanding the human gut, specifically focusing on Crohn's disease. It uses the REDCap system to securely track and analyze data, addressing challenges of integrating various types of health data for research and analysis.
The Gut Cell Atlas (GCA), an initiative funded by the Helmsley Charitable Trust, seeks to create a reference platform to understand the human gut, with a specific focus on Crohn's disease. Although a primary focus of the GCA is on focusing on single-cell profiling, we seek to provide a framework to integrate other analyses on multi-modality data such as electronic health record data, radiological images, and histology tissues/images. Herein, we use the research electronic data capture (REDCap) system as the central tool for a secure web application that supports protected health information (PHI) restricted access. Our innovations focus on addressing the challenges with tracking all specimens and biopsies, validating manual data entry at scale, and sharing organizational data across the group. We present a scalable, cross-platform barcode printing/record system that integrates with REDCap. The central informatics infrastructure to support our design is a tuple table to track longitudinal data entry and sample tracking. The current data collection (by December 2020) is illustrated with types and formats of the data that the system collects. We estimate that one terabyte is needed for data storage per patient study. Our proposed data sharing informatics system addresses the challenges with integrating physical sample tracking, large files, and manual data entry with REDCap.
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