caTIES: a grid based system for coding and retrieval of surgical pathology reports and tissue specimens in support of translational research

Rebecca S Crowley, Melissa Castine, Kevin Mitchell, Girish Chavan, Tara McSherry, Michael Feldman
2010 JAMIA Journal of the American Medical Informatics Association  
The authors report on the development of the Cancer Tissue Information Extraction System (caTIES)dan application that supports collaborative tissue banking and text mining by leveraging existing natural language processing methods and algorithms, grid communication and security frameworks, and query visualization methods. The system fills an important need for textderived clinical data in translational research such as tissue-banking and clinical trials. The design of caTIES addresses three
more » ... ical issues for informatics support of translational research: (1) federation of research data sources derived from clinical systems; (2) expressive graphical interfaces for concept-based text mining; and (3) regulatory and security model for supporting multicenter collaborative research. Implementation of the system at several Cancer Centers across the country is creating a potential network of caTIES repositories that could provide millions of de-identified clinical reports to users. The system provides an end-to-end application of medical natural language processing to support multiinstitutional translational research programs.
doi:10.1136/jamia.2009.002295 pmid:20442142 pmcid:PMC2995710 fatcat:cotiub7yfbahfarpfn3urykbaq