Federation of Brain Data through Knowledge-guided Mediation
In this chapter, we describe a data integration framework for multi-resolution data and some of the tools we have created for achieving integration of distributed data sources. The chapter is divided into two parts. In the first part, we describe a recently developed database for high resolution 3D data on cell structure and protein localization, the Cell Centered Database or CCDB. In the second part, we describe how we can link data sources such as the CCDB to other databases using a mediation-based approach. By incorporating additional knowledge into the system, we are able to link together sources that are related conceptually, even if they do not contain similar elements in their schemata. For each of the tools and resources described, we indicate its current state of development and availability.
Key wordsdatabase electron tomography protein localization confocal microscopy electron microscopy
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- Gupta, A., Ludaescher, B. and Martone, M. E. (2000) Knowledge-based integration of neuroscience data sources. Proceedings of the 12th International Conference on Scientific and Statistical Database Management (SSDBM’00) IEEE Computer Society,Google Scholar
- Ludaescher, B., Gupta, A. and Martone, M. E. (2001) Model-based mediation with domain maps. Proceedings of the 17th International Conference on Data Engineering, IEEE Computer Society 2001, Heidelberg, Germany, April 2–6, 2001.Google Scholar
- Martone, M. E., Gupta, A., Wong, M., Qian, X., Sosinsky, G., Ludascher, B. and Ellisman, M. H. (in press) A cell-centered database for electron tomographic data. J. Struct. Biol,Google Scholar
- Paxinos, G. and Watson, C. (1998) The rat brain in stereotaxic coordinates, Academic Press, San Diego.Google Scholar
- Shepherd, G. M., Mirsky, J. S., Healy, M. D., Singer, M. S., Skoufos, E., Hines, M. S., Nadkarni, P. M. and Miller, P. L. (1998) The human brain project: Neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data. Trends Neurosci, 21, 460–468.PubMedCrossRefGoogle Scholar