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Demand-Driven Database Integration for Biomolecular Applications

Summary: Demand-Driven Database Integration for
Biomolecular Applications
Karl Aberer
GMD-IPSI, Dolivostr. 15, D-64293 Darmstadt, GERMANY
email: aberer@darmstadt.gmd.de
As a member of the consortium for the "Computation and Prediction of Receptor-Ligand
Interaction" the Integrated Publication and Information Systems Institute, GMD-IPSI ,
Darmstadt, participates in the national joint project RELIWE. Docking-D is the part of
RELIWE which considers heterogeneous database support and in which GMD-IPSI takes
the leading role. In the current situation the receptor and ligand data used within the
project, either raw data or data derived during analysis, is extremely heterogeneous. Many
of these databases are supported by autonomous systems which employ different data
management facilities with heterogeneous data models, in particular dedicated file systems
with specialized retrieval and presentation functionality (e.g. PDB [1]) or a relational model
(e.g. Whatif [20]). In addition, the information is represented at different levels of detail (e.g.
sequence vs. structural data), with mutual inconsistencies in structure, naming, scaling,
and behavior, whereby much of this behavior is hidden in the implementation of the
autonomous systems. Thus the database system must enable integrated access to the
underlying, autonomous, heterogeneous information bases, but also has to allow the


Source: Aberer, Karl - Faculté Informatique et Communications, Ecole Polytechnique Fédérale de Lausanne


Collections: Computer Technologies and Information Sciences