title: Translational research platforms integrating clinical and omics data: a review of publicly available solutions.
abstract: The rise of personalized medicine and the availability of high-throughput molecular analyses in the context of clinical care have increased the need for adequate tools for translational researchers to manage and explore these data. We reviewed the biomedical literature for translational platforms allowing the management and exploration of clinical and omics data, and identified seven platforms: BRISK, caTRIP, cBio Cancer Portal, G-DOC, iCOD, iDASH and tranSMART. We analyzed these platforms along seven major axes. (1) The community axis regrouped information regarding initiators and funders of the project, as well as availability status and references. (2) We regrouped under the information content axis the nature of the clinical and omics data handled by each system. (3) The privacy management environment axis encompassed functionalities allowing control over data privacy. (4) In the analysis support axis, we detailed the analytical and statistical tools provided by the platforms. We also explored (5) interoperability support and (6) system requirements. The final axis (7) platform support listed the availability of documentation and installation procedures. A large heterogeneity was observed in regard to the capability to manage phenotype information in addition to omics data, their security and interoperability features. The analytical and visualization features strongly depend on the considered platform. Similarly, the availability of the systems is variable. This review aims at providing the reader with the background to choose the platform best suited to their needs. To conclude, we discuss the desiderata for optimal translational research platforms, in terms of privacy, interoperability and technical features.
authors.forename: Vincent
authors.initials: V
authors.lastname: Canuel
authors.forename: Bastien
authors.initials: B
authors.lastname: Rance
authors.forename: Paul
authors.initials: P
authors.lastname: Avillach
authors.forename: Patrice
authors.initials: P
authors.lastname: Degoulet
authors.forename: Anita
authors.initials: A
authors.lastname: Burgun
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D023281:Genomics / Q000706:statistics & numerical data; D006801:Humans; D057285:Precision Medicine / Q000706:statistics & numerical data; D012984:Software; D057170:Translational Research, Biomedical / Q000706:statistics & numerical data*
keywords: biomedical research; clinical data; high-throughput technologies; information storage and retrieval; translational medical research