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Database Systems for the Analysis of Biochemical Pathways

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Molecular Biology and Pathogenicity of Mycoplasmas

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Abstract

The mycoplasmas were amongst the first organisms for which the complete genome sequence was obtained and made available to the public domain (13; 10; 6). Complementary information, such as the proteome of mycoplasma pneumoniae (26) and reconstructed pathways, has also been made available and can be queried or downloaded from various locations on the web. However, database systems that allow scientists to work with these data in an integrated manner, together with other relevant information, are still not common. This is a wide-spread problem that not only applies to mycoplasma. Current biological research uses a wide range of interacting software which in turn uses a large number of disparate data source. These problems have arisen for several reasons which are, amongst others, the specialisation of biological disciplines, the lack of unified interfaces and the variations in the interpretation of the data. Bioinformatic tools need to overcome these difficulties. For biochemical pathways this implies the development of a system which is based on the functional roles of molecular objects such as reactions and pathways. From a data modelling point of view the modelling of biochemical processes is a complex problem. Fuzziness of the definitions, exceptions and complex relations, are some of the common characteristics that are found when attempting to model these processes.

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Author information

Authors and Affiliations

  1. European Media Laboratory, Heidelberg, Germany

    Isabel Rojas-Mujica

  2. Umber - Bioinformatics Group, School of Biological Sciences, University of Manchester, UK

    Erich Bornberg-Bauer

Authors
  1. Isabel Rojas-Mujica
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  2. Erich Bornberg-Bauer
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Editor information

Editors and Affiliations

  1. The Hebrew University-Hadassah Medical School, Jerusalem, Israel

    Shmuel Razin

  2. University of Heidelberg, Heidelberg, Germany

    Richard Herrmann

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© 2002 Springer Science+Business Media New York

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Rojas-Mujica, I., Bornberg-Bauer, E. (2002). Database Systems for the Analysis of Biochemical Pathways. In: Razin, S., Herrmann, R. (eds) Molecular Biology and Pathogenicity of Mycoplasmas. Springer, Boston, MA. https://doi.org/10.1007/0-306-47606-1_9

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  • DOI: https://doi.org/10.1007/0-306-47606-1_9

  • Publisher Name: Springer, Boston, MA

  • Print ISBN: 978-1-4757-8232-5

  • Online ISBN: 978-0-306-47606-8

  • eBook Packages: Springer Book Archive

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