论文信息 - BLID: An Application of Logical Information Systems to Bioinformatics

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.

Ross D. King | Sébastien Ferré | R. King | S. Ferré

[1] A. Goffeau,et al. Yeast genome , 1995 .

[2] Luc De Raedt,et al. A perspective on inductive databases , 2002, SKDD.

[3] Olivier Ridoux,et al. The Use of Associative Concepts in the Incremental Building of a Logical Context , 2002, ICCS.

[4] Olivier Ridoux,et al. A Framework for Developing Embeddable Customized Logics , 2001, LOPSTR.

[5] O. Ridoux,et al. Introduction to logical information systems , 2004, Inf. Process. Manag..

[6] Shengli Wu,et al. GIMS-a data warehouse for storage and analysis of genome sequence and functional data , 2001, Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001).

[7] Amanda Clare,et al. Genome scale prediction of protein functional class from sequence using data mining , 2000, KDD '00.

[8] Bernhard Ganter,et al. Formalizing Hypotheses with Concepts , 2000, ICCS.

[9] Luc De Raedt,et al. Inductive Logic Programming: Theory and Methods , 1994, J. Log. Program..

[10] M Ouali,et al. Cascaded multiple classifiers for secondary structure prediction , 2000, Protein science : a publication of the Protein Society.

[11] André Goffeau,et al. The yeast genome directory. , 1997, Nature.

[12] Rokia Missaoui,et al. Experimental Comparison of Navigation in a Galois Lattice with Conventional Information Retrieval Methods , 1993, Int. J. Man Mach. Stud..

[13] Ronald J. Brachman,et al. ON THE EPISTEMOLOGICAL STATUS OF SEMANTIC NETWORKS , 1979 .