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E-raamat: Data Intensive Computing for Biodiversity

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  • Formaat: PDF+DRM
  • Sari: Data, Semantics and Cloud Computing 485
  • Ilmumisaeg: 31-May-2013
  • Kirjastus: Springer-Verlag Berlin and Heidelberg GmbH & Co. K
  • Keel: eng
  • ISBN-13: 9783642380471
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Data Intensive Computing for BiodiversitySuurem pilt
  • Formaat: PDF+DRM
  • Sari: Data, Semantics and Cloud Computing 485
  • Ilmumisaeg: 31-May-2013
  • Kirjastus: Springer-Verlag Berlin and Heidelberg GmbH & Co. K
  • Keel: eng
  • ISBN-13: 9783642380471
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This book is focused on the development of a data integration framework for retrieval of biodiversity information from heterogeneous and distributed data sources. The data integration system proposed in this book links remote databases in a networked environment, supports heterogeneous databases and data formats, links databases hosted on multiple platforms, and provides data security for database owners by allowing them to keep and maintain their own data and to choose information to be shared and linked. The book is a useful guide for researchers, practitioners, and graduate-level students interested in learning state-of-the-art development for data integration in biodiversity.

This book presents a data integration system that links remote databases in a networked environment, supports heterogeneous databases and data formats, links databases hosted on multiple platforms, and allows database owners to chose how to share their data.
1 Introduction
1(6)
1.1 Overview
1(1)
1.2 Global Perspective on Biodiversity Information
1(1)
1.3 Malaysian Perspective of Biodiversity Information
2(5)
1.3.1 Physical Repositories
3(1)
1.3.2 Virtual Repositories
4(1)
1.3.3 Problems Concerning Biodiversity Information in Malaysia
4(1)
References
5(2)
2 Preliminary Study
7(16)
2.1 Introduction
7(1)
2.2 First Phase Implementation
7(5)
2.2.1 Implementation of DiGIR Using an Algae Database
7(3)
2.2.2 Installation of a Simple Portal on a Remote Machine
10(2)
2.3 Second Phase Implementation
12(8)
2.3.1 DiGIR Software Setup and Configuration
12(2)
2.3.2 Provider Setup
14(1)
2.3.3 Running the DiGIR Portal
15(1)
2.3.4 DiGIR Implementation Results
16(4)
2.4 Discussion
20(1)
2.5 Conclusion
20(3)
References
21(2)
3 Literature Review
23(40)
3.1 Introduction
23(1)
3.2 Existing Database Integration System
23(7)
3.2.1 GenoMax
23(1)
3.2.2 Kleisli
24(1)
3.2.3 Discovery Link
25(2)
3.2.4 Spice
27(1)
3.2.5 Distributed Generic Information Retrieval
28(2)
3.2.6 Dimensions of Variations for Existing Systems
30(1)
3.3 Related Components and Technologies for Database Integration
30(9)
3.3.1 Databases
30(2)
3.3.2 Database Integration Database Management Systems and Relational Database Management Systems
32(1)
3.3.3 Biodiversity Data Formats
33(6)
3.4 Technical Aspects of Database Integration
39(18)
3.4.1 Integration Approaches
39(1)
3.4.2 Web Pages and Interfaces
39(7)
3.4.3 Database Integration with the Web
46(1)
3.4.4 Markup Languages for Database Integration System
47(5)
3.4.5 Scripting Languages
52(2)
3.4.6 Query Languages and Database Connectivity
54(2)
3.4.7 Web Services
56(1)
3.5 Conclusion
57(6)
References
58(5)
4 Methodology
63(12)
4.1 Introduction
63(1)
4.2 Methodology for Biodiversity Data Format and Development of Relational Biodiversity Databases
63(4)
4.2.1 Requirements Analysis for a Biodiversity Data Format
64(1)
4.2.2 Development of Relational Biodiversity Databases
65(2)
4.3 Methodology for Building the Proposed Database Integration System
67(5)
4.3.1 Selection of Development Tools
68(1)
4.3.2 Selection of Integration Approach
68(1)
4.3.3 Selection of Relational Biodiversity Databases for CABIR
69(1)
4.3.4 Development of CABIR
70(2)
4.4 System Testing Methodology
72(1)
4.5 Conclusion
73(2)
References
74(1)
5 Biodiversity Databases
75(10)
5.1 Introduction
75(1)
5.2 Biodiversity Data Format
75(1)
5.3 Relational Biodiversity Databases
75(8)
5.3.1 South East Asia Fruit Flies Database
78(1)
5.3.2 Host-Parasite Database
78(1)
5.3.3 Malaysian Indigenous Fern Database
79(4)
5.3.4 Herbarium of Zingiberaceae Database
83(1)
5.4 Conclusion
83(2)
6 Proposed Solution
85(28)
6.1 Introduction
85(1)
6.2 Hierarchical View of CABIR
85(1)
6.3 Proposed Database Integration System: CABIR
85(18)
6.3.1 System Architecture
85(8)
6.3.2 System Features
93(1)
6.3.3 CABIR and FileMaker Databases
94(1)
6.3.4 Image Retrieval
94(2)
6.3.5 Flexible Data Format
96(2)
6.3.6 Link to Remote Cross Platform Providers
98(1)
6.3.7 Link to Heterogeneous Database Management Systems
98(5)
6.3.8 Error Messages
103(1)
6.4 System Design
103(5)
6.4.1 Main Page
104(1)
6.4.2 Search Page
104(1)
6.4.3 Results of Search
105(1)
6.4.4 Searching all Records Within a Database
105(3)
6.5 Results of System Testing
108(3)
6.5.1 Functionality and Usability
108(1)
6.5.2 Reliability and Efficiency
108(1)
6.5.3 Maintainability and Portability
109(2)
6.6 Conclusion
111(2)
References
111(2)
7 Concluding Remarks
113(6)
7.1 Introduction
113(1)
7.2 CABIR in Biodiversity Databases
113(1)
7.3 CABIR as a Simple and Dynamic Database Integration System
114(1)
7.4 CABIR and Data Security
114(1)
7.5 A Summary of Comparison Between CABIR and DiGIR
114(1)
7.6 CABIR as a Model Database Integration System
115(1)
7.7 CABIR Limitations
115(2)
7.8 Future Focus
117(1)
7.9 Conclusion
117(2)
References
118(1)
Appendix A Survey for Developing Standard for Biodiversity Databases 119(2)
Appendix B Darwin Core V2 Searchable Concepts 121
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