Data Management for Federated Biobanks

Biobanks store and manage collections of biological material (tissue, blood, cell cultures, etc.) and manage the medical and biological data associated with this material. Biobanks are invaluable resources for medical research. The diversity, heterogeneity and volatility of the domain make information systems for biobanks a challenging application domain. The European project BBMRI (Biobanking and Biomolecular Resources Research Infrastructure) has the mission to network European biobanks, to improve resources for biomedical research, an thus contribute to improve the prevention, diagnosis and treatment of diseases. We present the challenges and discuss some architectures for interconnecting European biobanks and harmonizing their data.

[1]  Sushil Jajodia,et al.  Temporal Databases: Research and Practice , 1998 .

[2]  Kurt Zatloukal,et al.  Biobanks: transnational, European and global networks. , 2007, Briefings in functional genomics & proteomics.

[3]  Peter Chamoni,et al.  Temporal Structures in Data Warehousing , 1999, DaWaK.

[4]  Johann Eder,et al.  The COMET Metamodel for Temporal Data Warehouses , 2002, CAiSE.

[5]  Jennifer Widom,et al.  Temporal Data Warehousing , 2009, Encyclopedia of Database Systems.

[6]  Johann Eder,et al.  Information Systems for Federated Biobanks , 2009, Trans. Large Scale Data Knowl. Centered Syst..

[7]  Johann Eder,et al.  GATiB-CSCW, Medical Research Supported by a Service-Oriented Collaborative System , 2008, CAiSE.

[8]  Johann Eder,et al.  Towards the Next Generation of Service-Oriented Flexible Collaborative Systems - A Basic Framework Applied to Medical Research , 2008, ICEIS.

[9]  Lucilla Lecchi,et al.  Biobanking in the Year 2007 , 2007, Transfusion Medicine and Hemotherapy.

[10]  Carole A. Goble,et al.  Using provenance to manage knowledge of In Silico experiments , 2007, Briefings Bioinform..

[11]  Johann Eder,et al.  Changes of Dimension Data in Temporal Data Warehouses , 2001, DaWaK.

[12]  Joel H. Saltz,et al.  caGrid: design and implementation of the core architecture of the cancer biomedical informatics grid , 2006, Bioinform..

[13]  Leena Peltonen,et al.  The federated database – a basis for biobank-based post-genome studies, integrating phenome and genome data from 600 000 twin pairs in Europe , 2007, European Journal of Human Genetics.

[14]  Nick Roussopoulos,et al.  Interoperability of multiple autonomous databases , 1990, CSUR.

[15]  Johann Eder,et al.  Evolution of Dimension Data in Temporal Data Warehouses , 2000 .

[16]  A Berghold,et al.  The Genome Austria Tissue Bank (GATiB) , 2007, Pathobiology.

[17]  Fay Betsou,et al.  Biobanking for better healthcare , 2008, Molecular oncology.