Appl Clin Inform 2016; 07(02): 260-274
DOI: 10.4338/ACI-2015-09-RA-0125
Research Article
Schattauer GmbH

Integrating Heterogeneous Biomedical Data for Cancer Research: the CARPEM infrastructure

Bastien Rance
1  University Hospital Georges Pompidou, Paris, France
2  INSERM UMR_S 1138, CRC, Paris, France
,
Vincent Canuel
1  University Hospital Georges Pompidou, Paris, France
,
Hector Countouris
1  University Hospital Georges Pompidou, Paris, France
2  INSERM UMR_S 1138, CRC, Paris, France
,
Pierre Laurent-Puig
1  University Hospital Georges Pompidou, Paris, France
3  Université Paris Sorbonne Cité, Inserm UMR-S 1147, Paris, France
,
Anita Burgun
1  University Hospital Georges Pompidou, Paris, France
2  INSERM UMR_S 1138, CRC, Paris, France
› Author Affiliations
Further Information

Publication History

received: 02 October 2015

accepted: 07 February 2016

Publication Date:
16 December 2017 (online)

Summary

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.

Citation: Rance B, Canuel V, Countouris H, Laurent-Puig P, Burgun A. Integrating heterogeneous biomedical data for cancer research: the CARPEM infrastructure.