caTissue Suite to OpenSpecimen: Developing an extensible, open source, web-based biobanking management system

Journal of Biomedical Informatics
Leslie D McIntoshRakesh Nagarajan

Abstract

The National Cancer Institute (NCI) Cancer Biomedical Informatics Grid® (caBIG®) program established standards and best practices for biorepository data management by creating an infrastructure to propagate biospecimen resource sharing while maintaining data integrity and security. caTissue Suite, a biospecimen data management software tool, has evolved from this effort. More recently, the caTissue Suite continues to evolve as an open source initiative known as OpenSpecimen. The essential functionality of OpenSpecimen includes the capture and representation of highly granular, hierarchically-structured data for biospecimen processing, quality assurance, tracking, and annotation. Ideal for multi-user and multi-site biorepository environments, OpenSpecimen permits role-based access to specific sets of data operations through a user-interface designed to accommodate varying workflows and unique user needs. The software is interoperable, both syntactically and semantically, with an array of other bioinformatics tools given its integration of standard vocabularies thus enabling research involving biospecimens. End-users are encouraged to share their day-to-day experiences in working with the application, thus providing to the commun...Continue Reading

References

Nov 16, 2010·Current Opinion in Oncology·Robert E Hewitt
Jun 16, 2011·Journal of the National Cancer Institute. Monographs·Jimmie VaughtCarolyn Compton

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Citations

Apr 24, 2016·Journal of the American Medical Informatics Association : JAMIA·Jessica D TenenbaumRobert R Freimuth
Sep 16, 2016·Database : the Journal of Biological Databases and Curation·Yu Rang ParkUNKNOWN Korean Kawasaki Disease Genetics Consortium
May 26, 2021·Biopreservation and Biobanking·Pei-Fen ZhangWei-Hua Jia

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