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. 2016 May 11;17(1):212.
doi: 10.1186/s12859-016-1068-8.

Brain Radiation Information Data Exchange (BRIDE): integration of experimental data from low-dose ionising radiation research for pathway discovery

Christos Karapiperis  1 , Stefan J Kempf  2   3 , Roel Quintens  4 , Omid Azimzadeh  2 , Victoria Linares Vidal  5 , Simonetta Pazzaglia  6 , Dimitry Bazyka  7 , Pier G Mastroberardino  8 , Zacharias G Scouras  1 , Soile Tapio  9 , Mohammed Abderrafi Benotmane  10 , Christos A Ouzounis  11   12
Affiliations

Brain Radiation Information Data Exchange (BRIDE): integration of experimental data from low-dose ionising radiation research for pathway discovery

Christos Karapiperis et al. BMC Bioinformatics. .

Abstract

Background: The underlying molecular processes representing stress responses to low-dose ionising radiation (LDIR) in mammals are just beginning to be understood. In particular, LDIR effects on the brain and their possible association with neurodegenerative disease are currently being explored using omics technologies.

Results: We describe a light-weight approach for the storage, analysis and distribution of relevant LDIR omics datasets. The data integration platform, called BRIDE, contains information from the literature as well as experimental information from transcriptomics and proteomics studies. It deploys a hybrid, distributed solution using both local storage and cloud technology.

Conclusions: BRIDE can act as a knowledge broker for LDIR researchers, to facilitate molecular research on the systems biology of LDIR response in mammals. Its flexible design can capture a range of experimental information for genomics, epigenomics, transcriptomics, and proteomics. The data collection is available at: <bride.azurewebsites.net>.

Keywords: Brain research; Data integration; Low-dose ionising radiation; Omics technologies; Systems biology.

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Figures

Fig. 1
Fig. 1
BRIDE system architecture. The 3-tier architecture between storage, processing and presentation
Fig. 2
Fig. 2
BRIDE gene catalog. A detailed screenshot of BRIDE’s gene catalog, with entities described
Fig. 3
Fig. 3
OData XML results. Example results in XML format
See this image and copyright information in PMC

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