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HETEROGENEOUS BIOLOGICAL DATABASES INTEGRATION

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Introduction

HETEROGENEOUS BIOLOGICAL DATABASES INTEGRATION Contents Page No. 1. Abstract ..................................................................................................... 1 2. Introduction .............................................................................................. 2 i. Biological data sources ...................................................................... 2 ii. Biological database integration approaches ..................................... 3 iii. Integration approaches from understanding user request ............... 4 iv. Navigational approach ....................................................................... 5 v. Data warehouse approach .................................................................. 6 vi. Mediator approach .............................................................................. 7 3. Discussions ................................................................................................. 8 i. Suggestions for further work .............................................................. 11 4. Conclusion .................................................................................................. 12 5. References .................................................................................................... 13 ABSTRACT This research report involves about integration of various sources of data to solve biological problems. Our philosophy is different types of data sources gives us more information than a single. By combining data sources in an intelligent way, we can obtain a more complete picture of the problem. Biological data sources are known for their heterogeneous. These aspects include data formats, physical location and their query capabilities. These sources of data can be easily integrated so that researchers can access, query and get results. This article tries to look at the dissimilarities of the main sources of biological data and some major approaches in dealing with the integration of multiple biological databases. Mediator approach ontology is also discussed in this work. The integration of databases is based on many existing collections and databases of resources by placing them on the integrated data for management platform. The data integration in molecular biology is important for large users cannot find all the relevant data with one data source. Another advantage of data integration is the ability to obtain information from a new quality and semantic relationships between the integrated data from various sources. In current environment is difficult to find and analyze data, because a user has to visit all sources, but integration approaches can prepare a single location that provide effective data access from many sources. Here the Researcher will illustrate the concept of Ontology for Biological heterogeneous database integration. The main components of ontology are concepts, relations, attributes, instances and axioms. ...read more.

Middle

The data in heterogeneous database remotely copied to a local server and the user will use a single interface in the system to allow multi-database queries to be released this single. This definition of the data warehouse focuses on data storage. However, the means to retrieve and analyze data, to extract, transform and load data and manage the data dictionary are also considered essential components of a data storage system. Many references to the data storage are using this broader context. Therefore, an expanded definition includes data warehousing business intelligence tools, tools to extract, transform and load data into the repository, and tools to manage and retrieve metadata. Datawarehousing arises the need of reliable organization, consolidated information, unique and integrated analysis of data at different levels of aggregation. MEDIATOR APPROACH Figure 4: Architecture for Biological Database Integration (Bio Meta Search Engine) Another approach to the integration of biological databases is the mediator approach. System as DiscoveryLink (L. Wong, 2002 and C. Goble, 2000), K2/Kleisli (SB Davidson, J. Crabtree, Brunk B., J. Schug, V. Tannen, C. Overton and C. Toeckert, 2001) , TAMBIS (Paton NW, R. Stevens, P. Baker, CA Goble, S. Bechhofer, and A. Brass, 1999), and BACIIS (ZB Miled, N. Li, GL Kellett, B., and Bukhres Sipesand O., 2002 ) uses this approach. Mediator based approach does not store any data, but provides a virtual view of the integrated sources (M. Kazemi, B. Moshiri, H. and C. Nikhbakh Lucas, 2005). Mediator approach basically translate user's query, in consultation is meant by sources in the system. This study describes the relationship between descriptions of the source and the mediator and therefore allows the mediator queries to be translated to questions about the data source. DISCUSSIONS Navigation approach is used in systems such as SRS and Entrez. It is popular for its ease of use the feature and only involves the tasks of pointing and clicking. ...read more.

Conclusion

Ontologies are stored in rebuilt and used a mediator to help the user build the query. The query is translated by the mediator and sent to the data sources incorporated. In this research, data sources will be incorporated into data sources such as SWISS-PROT and Genbank. The result of the merger with the ontology is compared with the result of the use of ontologies individually. The level of abstraction is focus on the level of biological taxonomy for the starters. CONCLUSION The report begins with a description of the problem of heterogeneous biological data sources and following sections describes the approaches in integration of data sources. Three approaches have presented, from those approaches mediator approach has the advantage over other approaches in integrating biological data sources. Mediator approach is one of the ontology-based user assistance by the system integration. Specifically biological ontology or ontology could help users in the construction of meaningful consultation on the system. Alternative ontology should also be included, which means the user can add to the system of Ontology. The Combination of biological ontology in a mediator approach requires further investigation. This makes the formulation of queries much more useful on heterogeneous data sources using ontology. From this research, the researcher conclude that many work has been performed using Ontology. Even there are few tools exist to implement for specific data sources, but there is no fixed global tool for various data source. The New trends in ontology are XML (XML based integration) and space technology. However, there are still few investigations are on Hybrid ontology approaches. So finally the Researcher concludes that ontology integration is possible using the methods described in this document. Even though the research is seems to be ad-hoc. The Researcher learned the concept of the ontology and the integration using three databases approach. Also the Researcher has given references for the studies and ongoing research on the same approach. The Researcher wishes to thank the University to make the report of the investigation and the opportunity to learn this work, also thankful to Mr. Cyril Anthony, for motivating this work and contributing helpful comments. ...read more.

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