title: Integrating Heterogeneous Biomedical Data for Cancer Research: the CARPEM infrastructure.
abstract: Cancer research involves numerous disciplines. The multiplicity of data sources and their heterogeneous nature render the integration and the exploration of the data more and more complex. Translational research platforms are a promising way to assist scientists in these tasks. In this article, we identify a set of scientific and technical principles needed to build a translational research platform compatible with ethical requirements, data protection and data-integration problems. We describe the solution adopted by the CARPEM cancer research program to design and deploy a platform able to integrate retrospective, prospective, and day-to-day care data. We designed a three-layer architecture composed of a data collection layer, a data integration layer and a data access layer. We leverage a set of open-source resources including i2b2 and tranSMART.
authors.affiliation: University Hospital Georges Pompidou, Paris, France; INSERM UMR_S 1138, CRC, Paris, France.
authors.forename: Bastien
authors.initials: B
authors.lastname: Rance
authors.affiliation: University Hospital Georges Pompidou , Paris, France.
authors.forename: Vincent
authors.initials: V
authors.lastname: Canuel
authors.affiliation: University Hospital Georges Pompidou, Paris, France; INSERM UMR_S 1138, CRC, Paris, France.
authors.forename: Hector
authors.initials: H
authors.lastname: Countouris
authors.affiliation: University Hospital Georges Pompidou, Paris, France; Université Paris Sorbonne Cité, Inserm UMR-S 1147, Paris, France.
authors.forename: Pierre
authors.initials: P
authors.lastname: Laurent-Puig
authors.affiliation: University Hospital Georges Pompidou, Paris, France; INSERM UMR_S 1138, CRC, Paris, France.
authors.forename: Anita
authors.initials: A
authors.lastname: Burgun
mesh_terms: D035843:Biomedical Research; D006801:Humans; D016247:Information Storage and Retrieval; D009369:Neoplasms; D012984:Software; D018511:Systems Integration; D057170:Translational Research, Biomedical / Q000379:methods*
keywords: Data integration; medical information systems; translational medicine; translational research platform