A knowledge-based query system for biological databases

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 2522 LNAI, Issue , 2002, Pages 86-99

  Bresciani, Paolo ^a   Fontana, Paolo ^b  

^a ITC IRST   (Italy)

^b RESEARCH AND INNOVATION CENTRE   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

DIGITAL STORAGE; SEMANTICS; USER INTERFACES; GENES; QUERY PROCESSING;

BIOLOGICAL DATABASE; GENOMIC RESEARCH; KNOWLEDGE BASED; KNOWLEDGE-BASED REASONING; PROTEIN DATABASE; QUERY SYSTEMS;

KNOWLEDGE BASED SYSTEMS;

EID: 23044534447     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/3-540-36109-x_7     Document Type: Conference Paper

References (27)

1. http://muscle.cribi.unipd.it.
2. M. Ashburner, C. A. Ball, J. A. Blake, H. Butler, J. M. Cherry, J. Corradi, K. Dolinski, J. T. Eppig, M. Harris, D. P. Hill, S. Lewis, B. Marshall, C. Mungall, L. Reiser, S. Rhee, J. E. Richardson, J. Richter, M. Ringwald, G. M. Rubin, G. Sherlock, and J. Yoon. Creating the gene ontology resources: design and implementation. Genome Research, 11(8):1425-1433, Aug. 2001.
3. P. G. Baker, C. A. Goble, S. Bechhofer, N. W. Paton, R. Stevens, and A. Brass. An ontology for bioinformatics applications. Bionformatics, 15(6):510-520, 1999.
4. D. A. Benson, D. J. L. Ilene Karsch-Mizrachi, J. Ostell, B. A. Rapp, and D. L. Wheeler. GenBank. Nucleic Acids Research, 30(1):17-20, 2002.
5. J. A. Blake, J. E. Richardson, C. J. Bult, J. A. Kadin, J. T. Eppig, and T. M. G. D. Group. he mouse genome database (mgd): the model organism database for the laboratory mouse. Nucleic Acids Research, 30(1):113-115, Jan. 2002.
6. A. Borgida. Description logics for data management. IEEE Transactions on Knowledge and Data Engineering, 5(7), Oct. 1995.
7. P. Bresciani. The challenge of integrating knowledge representation and databases. Informatica, 20(4):443-453, Dec. 1996.
8. P. Bresciani, P. Fontana, and P. Busetta. A knowledge based interface for distributed biological databases. In D. Marra, E. Merelli, P. Romano, and G. Rossi, editors, Proceedings of the NETTAB international workshop on Agents in Bioinformatics. NETTAB, University of Bologna, July 2002.
9. P. Bresciani, M. Nori, and N. Pedot. A knowledge based paradigm for querying databases. In Proceedings of the 11th International Conference and on Database and Expert Systems Applications (DEXA 2000), volume 1873 of Lecture Notes in Artificial Intelligence, pages 794-804. Springer, Sept. 2000.
10. P. Bresciani, M. Nori, and N. Pedot. QueloDB: a knowledge based visual query system. In Proceeding of the 2000 International Conference on Artificial Intelligence (IC-AI 2000), volume III, Las Vegas, June 2000. CSREA Press.
11. M. Buchheit, M. A. Jeusfeld, W. Nutt, and M. Staudt. Subsumption between queries to object-oriented databases. Information Systems, 19(1):33-54, 1994.
12. D. Calvanese, M. Lenzerini, and D. Nardi. Description logics for conceptual data modeling. In J. Chomicki and G. Saake, editors, Logics for Databases and Information Systems. Kluwer Academic Publisher, 1998.
13. T. Catarci, S. Chang, M. Costabile, S. Levialdi, and G. Santucci. A graph-based framework for multiparadigmatic visual access to databases. IEEE Transactions on Knowledge and Data Engineering, 8(3):455-475, 1996.
14. T. Catarci, M. F. Costabile, S. Levialdi, and C. Batini. Visual query systems for databases: a survey. Journal of Visual Languages and Computing, 8(2):215-260, Apr. 1997.
15. nd International Conference on Principles of Knowledge Representation and Reasoning, pages 151-162, Cambridge, MA, 1991.
16. T. Etzold and P. Argos. Srs - an indexing and retrieval tool for flat file data libraries. Comput Appl Biosci, 9(1):49-57, Feb. 1993.
17. FlyBase Consortium. The FlyBase database of drosophila genome project and community literature. Nucleic Acids Research, 27:85-88, 1999.
18. I. Horrocks. Reasoning with expressive description logics: Theory and practice. In A. Voronkov, editor, Proc. of the 18th Int. Conf. on Automated Deduction (CADE-18), number 2392 in Lecture Notes in Artificial Intelligence, pages 1-15. Springer-Verlag, 2002.
19. I. Horrocks and U. Sattler. Optimised reasoning for SHIQ. In Proc. of the 15th Eur. Conf. on Artificial Intelligence (ECAI 2002), pages 277-281, July 2002.
20. I. Horrocks, U. Sattler, and S. Tobies. Practical reasoning for expressive description logics. In H. Ganzinger, D. McAllester, and A. Voronkov, editors, Proceedings of the 6th International Conference on Logic for Programming and Automated Reasoning (LPAR'99), number 1705 in Lecture Notes in Artificial Intelligence, pages 161-180. Springer-Verlag, 1999.
21. H. M. Jamil. Achieving interoperability of genome databases through intelligent web mediator. In Proceedings of the IEEE International Symposium on Bio-Informatics and Biomedical Engineering (BIBE 2000), Washington DC, Nov. 2000. IEEE.
22. H. M. Jamil. Gql: A reasonable complex sql for genomic databases. In Proceedings of the IEEE International Symposium on Bio-Informatics and Biomedical Engineering (BIBE 2000), Washington DC, Nov. 2000. IEEE.
23. B. Lewin. GenesVII. Oxford University Press, 2000.
24. K. D. Pruitt and D. R. Maglott. RefSeq and LocusLink: NCBI gene-centered resources. Nucleic Acids Research, 29(1):137-140, 2001.
25. G. Stoesser, W. Baker, A. van den Broek, E. Camon, M. Garcia-Pastor, C. Kanz, T. Kulikova, R. Leinonen, Q. Lin, V. Lombard, R. Lopez, N. Redaschi, P. Stoehr, M.A. Tuli, K. Tzouvara, and R. Vaughan. TheEMBL nucleotide sequencedatabase. NucleicAcidsResearch, 30(1):21-26, 2002.
26. M. Westerfield, E. Dorrey, A. E. Kirkpatrik, and A. Douglas. Zebrafish informatics and ZFIN the database. Methods Cell Biol., 60:339-355, 1999.
27. M. M. Zloof. Query-by-example:A database language. IBM System Journal, 16(4):324-343, 1977.