Abstract
Informatics for Integrating Biology and the Bedside (i2b2) is a database system to facilitate sharing and reuse of clinical patients' data collected in individual hospitals. The i2b2 provides an ontology based object-oriented database system with highly simple and flexible database schema which enables us to integrate clinical patients' data from different laboratories and different hospitals. 392 patients' data including carcinoma and non-carcinoma specimens from cancer patients are transported from the Integrated Clinical Omics Database (iCOD) to the i2b2 database for a feasibility study to check applicability of i2b2 ontology and database schema on Japanese clinical patients' data. No modification is required for the i2b2 data model to deal with Japanese characters. Some modification of ontology is required to integrate biomedical information extracted from the cancer patients' data. We believe that the i2b2 system will be practical infrastructure to integrate Japanese clinical databases if appropriate disease ontology for Japanese patients is provided.
Highlights
Patients’ records are rich in biomedical information to be analyzed, investigated and interpreted for application to clinical use in translational informatics
Translational informatics has a recently emerging research domain targeting computationally analysis of genomic information on individual patients in association with the clinical patients' data extracted from electronic medical records (EMRs) in hospitals
Translational informatics shall discover a clue to prediction and prevention of diseases by the use of personal genomic information, to provide better medication optimized person by person and healthy life for an individual patient.To facilitate translational informatics, there is a need of collection of clinical patients’ data formalized ready for computational analysis
Summary
Patients’ records are rich in biomedical information to be analyzed, investigated and interpreted for application to clinical use in translational informatics. Much of the information leaves behind extracted and integrated into a database to be available for further scientific analysis.The computational infrastructure called 'Informatics for Integrating Biology and the Bedside' (i2b2) [1, 2] has been developed in US to facilitate the use of the clinical patients’ data in the translational informatics. It is an open-source database system on the basis of object-oriented database schema and ontology-based knowledge definition. Such modification was necessary to fill the gap between the iCOD data and the original i2b2 ontology which is composed of ICD (International Statistical Classification of Diseases and Related Health Problems) [5] and LOINC (Logical Observation Identifiers Names and Codes) [6]
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