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

Crowley, RS and Castine, M and Mitchell, K and Chavan, G and McSherry, T and Feldman, M (2010) caTIES: A grid based system for coding and retrieval of surgical pathology reports and tissue specimens in support of translational research. Journal of the American Medical Informatics Association, 17 (3). 253 - 264. ISSN 1067-5027

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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 critical 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.


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Item Type: Article
Status: Published
CreatorsEmailPitt UsernameORCID
Crowley, RS
Castine, M
Mitchell, K
Chavan, Ggic1@pitt.eduGIC1
McSherry, T
Feldman, M
Date: 1 May 2010
Date Type: Publication
Journal or Publication Title: Journal of the American Medical Informatics Association
Volume: 17
Number: 3
Page Range: 253 - 264
DOI or Unique Handle: 10.1136/jamia.2009.002295
Schools and Programs: School of Medicine > Biomedical Informatics
Refereed: Yes
ISSN: 1067-5027
MeSH Headings: Biological Specimen Banks; Computer Graphics; Computer Security; Data Mining; Humans; Information Dissemination; Interinstitutional Relations; Multicenter Studies as Topic; Natural Language Processing; Neoplasms--pathology; Neoplasms--surgery; Translational Medical Research; United States; User-Computer Interface
Other ID: NLM PMC2995710
PubMed Central ID: PMC2995710
PubMed ID: 20442142
Date Deposited: 29 Aug 2012 15:55
Last Modified: 02 Feb 2019 16:58


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