Browse > Article
http://dx.doi.org/10.3745/KIPSTD.2004.11D.4.765

A Wrapper Model for Integrated Access to Biological Information Sources  

Park, Eun-Koung (경상대학교 대학원 컴퓨터학과)
Kang, Dong-Wan (경산대학교 대학원 컴퓨터과학)
Jung, Chai-Young (경산대학교 대학원 컴퓨터과학)
Bae, Jong-Min (경상대학교 컴퓨터과학과/컴퓨터정보통신연구소)
Abstract
In order to integrate heterogeneous biological information sources, it is necessary to define the view that represents unified viewpoint for the multiple sources by hiding heterogeneity of the data. We present an XML-based view definition model and show Its operating principles in designing the middleware system to integrate biological information sources. This model supports the user-defined XML view to increase flexibility in constructing the integration system and execute integrated queries on higher level ion. Based on the view-definition model, we present a wrapping model for relational database systems and web resources as well as an application program.
Keywords
Integration of Biological Information Sources; XML; View; Wrapper; Mediator; BLAST; Entrez;
Citations & Related Records
Times Cited By KSCI : 3  (Citation Analysis)
연도 인용수 순위
1 B. Eckman, Z. Lacroix, L. Raschid, 'Optimized Seamless Integration of Biomolecular Data,' Proc. of the IEEE 2nd International Symposium on Bioinformatics and Bioengineering Conference, pp.1-3, 2001   DOI
2 D. Benson, I. Karsch-Mizrachi, D. Lipman, J. Ostell, D. Wheeler, GenBank, Nucleic Acids Res, Vol.31, No.1, January, 2003
3 SRS Documentation, [Online]. Available : http://srs.hgmp.mrc.ac.uk
4 Swiss-Prot Documentation, [Online], Available : http://www.ebi.ac.uk/swissprot
5 'Practical Data Integration in Biopharmaceutical R&D : Strategies and Technologies,' White Paper, 3rd Millennium Inc, http://www.3rdmill.com, pp.9-12, May, 2002
6 A. S. Kosky, I. A. Chen, V. M. Markowitz, E. Szeto, 'Exploring Heterogeneous Biological Database : Tools and Application,' Proc. of the 6th International Conference on Extending Database Technology, pp.3-5, 1998
7 T. Topaloglou, A. S. Kosky, V. M. Markowitz, 'Seamless Integration of Biological Applications within Database Framework,' pp.5-6, ISMB, pp.272-281, 1999
8 Val Tannen, 'The Information Integration System K2,' white parper, http://db.cis.upenn.edu/K2/papers.html,' pp.4-5
9 Thomas Hernandez, Subbarao Kambhampati, 'Integration of Biological Sources : Current Systems and Challenges Ahead,' ASU CSE TR-03-005, pp.3-5, October, 2003
10 World-Wide Web Consortium, 'XML Schema Part 0 : Primer,' [Online].Available : http://www.w3c.org/TR/xmlschema-0/, W3C Recommendation, 2001
11 World-Wide Web Consortium 'XML Schema Part 1 : Structures,' [Online].Available : http://www.w3c.org/TR/xmlschema-1/, W3C Recommendation, 2001
12 World-Wide Web Consortium, 'XML Schema Part 2 : Datatypes,' [Online].Available : http://www.w3c.org/TR/xmlschema-2/, W3C Recommendation, 2001
13 L. M. Haas, P. M. Schwarz, P. Kodali, E. Kotlar, J. E. Rice, W. C. Swope, 'DiscoveryLink : A System for Integrated Access to Life Sciences Data Sources,' IBM systems journal, Vol.40, No.2, pp.5-9, 2001
14 I. A. Chen, V. M. Markowitz, 'An Overview of the Object-Protocol Model(OPM) and OPM Data Management Tools,' Inform. Syst., Vol.20, No.5, pp.5-10, April, 1995   DOI   ScienceOn
15 BLAST, [Online]. Available : http://www.ncbi.nlm.nih.gov/BLAST, 2003
16 정채영, 최규원, 김영옥, 김영균, 강현석, 배종민, '관계형 데이터베이스에서 XML 뷰 기반의 질의 처리 모델', 정보처리학회논문지D, 제10-D권 제2호, pp.221-232, April, 2003   과학기술학회마을   DOI
17 Zoe Lacroix, 'Biological Data Integration : Wrapping Data and Tools,' IEEE Transactions on information technology in biomedicine, Vol.6, No.2, pp.2-4, June, 2002   DOI   ScienceOn
18 Entrez-Search and Retrieval System, [Online], Available : http://www.ncbi.nlm.nih.gov/Entrez, 2003
19 Ian H. Witten and Eibe Frank, 'Data Mining : Practical Machine Learning Tools and Techniques with Java Implementations,' Morgan Kaufmann, pp.265-271, 2000
20 World-Wide Web Consortium, 'XQuery 1.0 : An XM1 Query Language,' [Online].Available : http://www.w3c.org/TR/xquery/, W3C Working Draft, 2003
21 정채영, 김영옥, 이미영, 강현석, 배종민, '사용자 정의 뷰기반의 XML 스키마 관리 시스템', 정보처리학회논문지D, 제10-D권 제3호, pp.367-374, June, 2003   과학기술학회마을   DOI