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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.

The authors report on the development of the Cancer Tissue Information Extraction System (caTIES)--an 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 text-derived 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 multi-center 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 multi-institutional translational research programs.

Pubmed ID: 20442142

Authors

  • Crowley RS
  • Castine M
  • Mitchell K
  • Chavan G
  • McSherry T
  • Feldman M

Journal

Journal of the American Medical Informatics Association : JAMIA

Publication Data

May 5, 2010

Associated Grants

  • Agency: NCI NIH HHS, Id: R01 CA132672
  • Agency: NCI NIH HHS, Id: R01 CA132672
  • Agency: NCI NIH HHS, Id: U01 CA 091343
  • Agency: NCRR NIH HHS, Id: U54 RR023506-01
  • Agency: NCATS NIH HHS, Id: UL1 TR000005

Mesh Terms

  • Biological Specimen Banks
  • Computer Graphics
  • Computer Security
  • Data Mining
  • Humans
  • Information Dissemination
  • Interinstitutional Relations
  • Multicenter Studies as Topic
  • Natural Language Processing
  • Neoplasms
  • Translational Medical Research
  • United States
  • User-Computer Interface