Download Biomedical Research and Integrated Biobanking: An Innovative by Massimiliano Izzo PDF

By Massimiliano Izzo

This doctoral thesis experiences on an leading edge information repository providing adaptive metadata administration to maximize details sharing and comprehension in multidisciplinary and geographically disbursed collaborations. It ways metadata as a fluid, loosely dependent and dynamical procedure instead of a set product, and describes the advance of a unique information administration platform in line with a schemaless JSON facts version, which represents the 1st totally JSON-based metadata repository designed for the biomedical sciences. effects received in quite a few software situations (e.g. built-in biobanking, practical genomics and computational neuroscience) and corresponding functionality exams are said on intimately. final yet no longer least, the booklet deals a scientific assessment of information structures well-known within the biomedical sciences, including a clean point of view at the function of and instruments for facts sharing and heterogeneous facts integration in modern biomedical research.

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Non-imaging data are first put in a virtual quarantine and must be verified by a qualified operator. This wide adoption of XML schemas poses a certain number of drawbacks. Inefficient metadata storage and querying is solved saving numeric and textual fields directly within the database. Another problem that is not so easy to solve, as the authors recognise, is the poor efficiency of the database tables generated from the XSD, due to sub-optimal mapping. As a consequence of the dichotomy between XML schema and database representation, whenever a change is made to the data model it must somehow propagate to the database.

Authorised users can query data from multiple studies. Frequently used queries can be saved and reused later. The most important module of COINS is the Medical Imaging Computer Information System (MICIS), devoted to studies, subjects and scans management. MICIS supports definition of custom subject types, for instance to distinguish between patients and controls. It is also equipped with a mechanism to unlink PHI from an entire study when the study expires. As of February 2015, COINS installation at MNR managed nearly 31,000 subjects from 558 studies, with more than 38,000 scan sessions and over 4,90,000 neuropsychological assessments [40].

Imaging Session has three specialisations according to the scanning modalities accepted by the DICOM standard: MR Session, PET Session and CT Session. XNAT relies on a three-tiered software architecture made of a PostgreSQL database back-end, a Java-based middleware tier usually deployed on an Apache Tomcat servlet container, and a web-based user interface. The XSD-to-database mapping happens as follows: each one of the XML Schema global elements is mapped to a single database table, with its sub-elements mapped to the table columns.

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