A complex biological database querying method

Many biological information systems rely on relational database management systems (RDBMS) to manage high-throughput biological data. While keeping these data well archived, organized, and integrated in a common repository is still a challenging task, performing complex queries, i.e., explorative ract ad hoc user questions in biology, is an even formidable task often substituted by writing complicated software programs. In this work, we propose a “complex query modeling” method to address the challenge of complex querying in biological domains. Query modeling consists of four distinct but interdependent phases of activities: representation of high-level problems, transformation of problems into connected query interfaces, designing database query structures, and translating query plans into high-performing SQL statements. At each stage, we use different notations and query modeling practices. Using gene indexing project as a case study, we show that query modeling enables prototyp...

• Type: Conference
• Year: 2005
• Where: SAC
• Authors: Jake Yue Chen, John V. Carlis, Ning Gao
• Keywords: Applied Computing, Complex Queries, Complex Query Modeling, Query Modeling, SAC 2005