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

BMC Bioinformatics

Database

Christos Karapiperis¹  Zacharias G. Scouras¹  Christos A. Ouzounis²  Pier G. Mastroberardino³  Soile Tapio⁴  Omid Azimzadeh⁴  Stefan J. Kempf⁵  Simonetta Pazzaglia⁶  Dimitry Bazyka⁷  Roel Quintens⁸  Mohammed Abderrafi Benotmane⁸  Victoria Linares Vidal⁹ 

[1] Department of Genetics, Development & Molecular Biology, School of Biology, Aristotle University of Thessalonica, 54124, Thessalonica, Greece;Department of Genetics, Development & Molecular Biology, School of Biology, Aristotle University of Thessalonica, 54124, Thessalonica, Greece;Biological Process & Computation Laboratory (BCPL), Chemical Process & Energy Resources Institute (CPERI), Centre for Research & Technology Hellas (CERTH), 57001, Thessalonica, Greece;Erasmus Medical Center, 3015GE, Rotterdam, The Netherlands;Institute of Radiation Biology, Helmholtz Zentrum München, German Research Center for Environmental Health GmbH, 85764, Neuherberg, Germany;Institute of Radiation Biology, Helmholtz Zentrum München, German Research Center for Environmental Health GmbH, 85764, Neuherberg, Germany;Present address: Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, 5230, Odense M, Denmark;Laboratory of Radiation Biology & Biomedicine, Agenzia Nazionale per le Nuove Tecnologie, l’Energia e lo Sviluppo Economico Sostenibile (ENEA) Centro Ricerche Casaccia, 00123, Rome, Italy;National Research Center for Radiation Medicine of the National Academy of Medical Sciences of Ukraine, Melnykov str. 53, 04050, Kyiv, Ukraine;Radiobiology Unit, Belgian Nuclear Research Centre (SCK•CEN), B-2400, Mol, Belgium;School of Medicine, IISPV, “Rovira i Virgili” University, Sant Llorens 21, 43201, Reus, Spain;

关键词: Low-dose ionising radiation;    Data integration;    Brain research;    Omics technologies;    Systems biology;   

DOI  :  10.1186/s12859-016-1068-8

 received in 2015-03-27, accepted in 2016-04-21,  发布年份 2016

来源: Springer

【 摘 要 】

BackgroundThe 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.ResultsWe 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.ConclusionsBRIDE 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: .

【 授权许可】

CC BY   
© Karapiperis et al. 2016