Query processing of geometric objects with free form boundarie sin spatial databases

The increasing demand for the use of database systems as an integrating factor in CAD/CAM applications has necessitated the development of database systems with appropriate modelling and retrieval capabilities. One essential problem is the treatment of geometric data which has led to the development of spatial databases. Unfortunately, most proposals only deal with simple geometric objects like multidimensional points and rectangles. On the other hand, there has been a rapid development in the field of representing geometric objects with free form curves or surfaces, initiated by engineering applications such as mechanical engineering, aviation or astronautics. Therefore, we propose a concept for the realization of spatial retrieval operations on geometric objects with free form boundaries, such as B-spline or Bezier curves, which can easily be integrated in a database management system. The key concept is the encapsulation of geometric operations in a so-called query processor. First, this enables the definition of an interface allowing the integration into the data model and the definition of the query language of a database system for complex objects. Second, the approach allows the use of an arbitrary representation of the geometric objects. After a short description of the query processor, we propose some representations for free form objects determined by B-spline or Bezier curves. The goal of efficient query processing in a database environment is achieved using a combination of decomposition techniques and spatial access methods. Finally, we present some experimental results indicating that the performance of decomposition techniques is clearly superior to traditional query processing strategies for geometric objects with free form boundaries

NOSQL design for analytical workloads: Variability matters

Big Data has recently gained popularity and has strongly questioned relational databases as universal storage systems, especially in the presence of analytical workloads. As result, co-relational alternatives, commonly known as NOSQL (Not Only SQL) databases, are extensively used for Big Data. As the primary focus of NOSQL is on performance, NOSQL databases are directly designed at the physical level, and consequently the resulting schema is tailored to the dataset and access patterns of the problem in hand. However, we believe that NOSQL design can also benefit from traditional design approaches. In this paper we present a method to design databases for analytical workloads. Starting from the conceptual model and adopting the classical 3-phase design used for relational databases, we propose a novel design method considering the new features brought by NOSQL and encompassing relational and co-relational design altogether.Peer ReviewedPostprint (author's final draft

Heterogeneous biomedical database integration using a hybrid strategy: a p53 cancer research database.

Complex problems in life science research give rise to multidisciplinary collaboration, and hence, to the need for heterogeneous database integration. The tumor suppressor p53 is mutated in close to 50% of human cancers, and a small drug-like molecule with the ability to restore native function to cancerous p53 mutants is a long-held medical goal of cancer treatment. The Cancer Research DataBase (CRDB) was designed in support of a project to find such small molecules. As a cancer informatics project, the CRDB involved small molecule data, computational docking results, functional assays, and protein structure data. As an example of the hybrid strategy for data integration, it combined the mediation and data warehousing approaches. This paper uses the CRDB to illustrate the hybrid strategy as a viable approach to heterogeneous data integration in biomedicine, and provides a design method for those considering similar systems. More efficient data sharing implies increased productivity, and, hopefully, improved chances of success in cancer research. (Code and database schemas are freely downloadable, http://www.igb.uci.edu/research/research.html.)