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A system for sharing routine surgical pathology specimens across institutions: the Shared Pathology Informatics Network

Drake, TA and Braun, J and Marchevsky, A and Kohane, IS and Fletcher, C and Chueh, H and Beckwith, B and Berkowicz, D and Kuo, F and Zeng, QT and Balis, U and Holzbach, A and McMurry, A and Gee, CE and McDonald, CJ and Schadow, G and Davis, M and Hattab, EM and Blevins, L and Hook, J and Becich, M and Crowley, RS and Taube, SE and Berman, J (2007) A system for sharing routine surgical pathology specimens across institutions: the Shared Pathology Informatics Network. Human Pathology, 38 (8). 1212 - 1225. ISSN 0046-8177

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Abstract

This report presents an overview for pathologists of the development and potential applications of a novel Web enabled system allowing indexing and retrieval of pathology specimens across multiple institutions. The system was developed through the National Cancer Institute's Shared Pathology Informatics Network program with the goal of creating a prototype system to find existing pathology specimens derived from routine surgical and autopsy procedures ("paraffin blocks") that may be relevant to cancer research. To reach this goal, a number of challenges needed to be met. A central aspect was the development of an informatics system that supported Web-based searching while retaining local control of data. Additional aspects included the development of an eXtensible Markup Language schema, representation of tissue specimen annotation, methods for deidentifying pathology reports, tools for autocoding critical data from these reports using the Unified Medical Language System, and hierarchies of confidentiality and consent that met or exceeded federal requirements. The prototype system supported Web-based querying of millions of pathology reports from 6 participating institutions across the country in a matter of seconds to minutes and the ability of bona fide researchers to identify and potentially to request specific paraffin blocks from the participating institutions. With the addition of associated clinical and outcome information, this system could vastly expand the pool of annotated tissues available for cancer research as well as other diseases. © 2007 Elsevier Inc. All rights reserved.


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Item Type: Article
Status: Published
Creators/Authors:
CreatorsEmailPitt UsernameORCID
Drake, TA
Braun, J
Marchevsky, A
Kohane, IS
Fletcher, C
Chueh, H
Beckwith, B
Berkowicz, D
Kuo, F
Zeng, QT
Balis, U
Holzbach, A
McMurry, A
Gee, CE
McDonald, CJ
Schadow, G
Davis, M
Hattab, EM
Blevins, L
Hook, J
Becich, Mbecich@pitt.eduBECICH
Crowley, RS
Taube, SE
Berman, J
Date: 1 August 2007
Date Type: Publication
Journal or Publication Title: Human Pathology
Volume: 38
Number: 8
Page Range: 1212 - 1225
DOI or Unique Handle: 10.1016/j.humpath.2007.01.007
Schools and Programs: School of Medicine > Biomedical Informatics
Refereed: Yes
ISSN: 0046-8177
MeSH Headings: Humans; Medical Informatics--organization & administration; Pathology, Surgical--organization & administration; Specimen Handling--methods; Tissue Banks; United States
PubMed ID: 17490722
Date Deposited: 05 Oct 2012 19:04
Last Modified: 27 Jan 2019 10:55
URI: http://d-scholarship.pitt.edu/id/eprint/15622

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