title: The ONCO-I2b2 project: integrating biobank information and clinical data to support translational research in oncology.
abstract: The University of Pavia and the IRCCS Fondazione Salvatore Maugeri of Pavia (FSM), has recently started an IT initiative to support clinical research in oncology, called ONCO-i2b2. ONCO-i2b2, funded by the Lombardia region, grounds on the software developed by the Informatics for Integrating Biology and the Bedside (i2b2) NIH project. Using i2b2 and new software modules purposely designed, data coming from multiple sources are integrated and jointly queried. The core of the integration process stands in retrieving and merging data from the biobank management software and from the FSM hospital information system. The integration process is based on a ontology of the problem domain and on open-source software integration modules. A Natural Language Processing module has been implemented, too. This module automatically extracts clinical information of oncology patients from unstructured medical records. The system currently manages more than two thousands patients and will be further implemented and improved in the next two years.
authors: IRCCS Fondazione S. Maugeri, Pavia, Italy.
authors: Daniele
authors: D
authors: Segagni
authors: Valentina
authors: V
authors: Tibollo
authors: Arianna
authors: A
authors: Dagliati
authors: Leonardo
authors: L
authors: Perinati
authors: Alberto
authors: A
authors: Zambelli
authors: Silvia
authors: S
authors: Priori
authors: Riccardo
authors: R
authors: Bellazzi
mesh_terms: D000465:Algorithms; D018070:Biological Specimen Banks; D003199:Computer Systems; D003201:Computers; D006751:Hospital Information Systems; D006801:Humans; D016247:Information Storage and Retrieval; D007558:Italy; D016347:Medical Records Systems, Computerized; D009323:Natural Language Processing; D012984:Software; D018511:Systems Integration; D057170:Translational Research, Biomedical / Q000295:instrumentation* / Q000379:methods; D014584:User-Computer Interface