Project deliverable Open Access
Boiten, Jan-Willem; Aime, Silvio; Bierkens, Mariska; Dastrù, Walter; Hansson, Mattias; Klein, Stefan; Longo, Dario; Peelen, Sjaak; Zullino, Sara; Sangiorgi, Luca; Mordenti, Marina; Boarini, Manila; Welsing, Paco
Task 3.4 in CORBEL (“Data integration and management services for image-driven and genomicsdriven biomarker studies”) was designed to develop a common IT framework to support data handling and analysis for both clinical and preclinical biomarker research, across disease areas. The effectiveness of the selected approaches has been demonstrated using national and international research projects in this domain. It was investigated whether the data integration and imaging solutions implemented for the selected use cases are not only operational and used, but can also serve as best practices within the framework of shared services between the (ESFRI) Biological and Medical Research Infrastructures in the medical domain. This has been demonstrated with four independent use cases across the spectrum from preclinical to clinical biomarker research:
The core of the CORBEL common IT framework for genomics and imaging studies in biomarker research consists of the tranSMART (data integration and browsing platform), cBioportal (patientlevel genomics platform) and XNAT (image archive platform) solutions. The present document describes how this infrastructure facilitates multi-modal biomarker research. The four use cases highlight what is needed for multimodal biomarker research, such as data capture, data curation pipelines, standardization, transformation, integration, and analysis. We conclude with recommendations regarding practical use of the common IT framework for future projects.
CORBEL_D3.10_Report on Final assessment and Generalization of Integration Platform_January-2020.pdf