BLID: An Application of Logical Information Systems to Bioinformatics

BLID (Bio-Logical Intelligent Database) is a bioinformatic system designed to help biologists extract new knowledge from raw genome data by providing high-level facilities for both data browsing and analysis. We describe BLID’s novel data browsing system which is based on the idea of Logical Information Systems. This enables combined querying and navigation of data in BLID (extracted from public bioinformatic repositories). The browsing language is a logic especially designed for bioinformatics. It currently includes sequence motifs, taxonomies, and macromolecule structures, and it is designed to be easily extensible, as it is composed of reusable components. Navigation is tightly combined with this logic, and assists users in browsing a genome through a form of human-computer dialog. 1 Motivation Over the last decade many organisms have had their genomes fully sequenced. For example, the 17 chromosomes of the Baker’s Yeast (Saccharomyces Cerevisiae) have been sequenced, and they c...

• Type: Conference
• Year: 2004
• Where: ICFCA
• Authors: Sébastien Ferré, Ross D. King
• Keywords: Bioinformatic, Data Browsing, Formal Languages, ICFCA 2004, Public Bioinformatic Repositories