Efficient Query Processing on Genomic Database using Data-Parallel Logic Programming Language

Hideo Matsuda (matsuda@seg.kobe-u.ac.jp)

Department of Computer and Systems Engineering,
Faculty of Engineering,
Kobe University
1-1 Rokkodai, Nada, Kobe 657, Japan


This paper proposes a prototype system for querying genomic database based on data-parallel logic programming. The efficient access to genomic database is crucial, given enormous increase in sequence data. By using a logic programming language, the system allows a user to perform adaptable data retrieval to integrated data objects in a single declarative framework. In addition by utilizing data-parallel processing, it provides efficient access in a large amount of genomic data on distributed computing environment. We present its design principle and discuss the implementation of the database system.