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A Proposal for a Gene Functions Wiki

  • Conference paper
On the Move to Meaningful Internet Systems 2006: OTM 2006 Workshops (OTM 2006)

Part of the book series: Lecture Notes in Computer Science ((LNISA,volume 4277))

Abstract

Large knowledge bases integrating different domains can provide a foundation for new applications in biology such as data mining or automated reasoning. The traditional approach to the construction of such knowledge bases is manual and therefore extremely time consuming. The ubiquity of the internet now makes large-scale community collaboration for the construction of knowledge bases, such as the successful online encyclopedia “Wikipedia”, possible.

We propose an extension of this model to the collaborative annotation of molecular data. We argue that a semantic wiki provides the functionality required for this project since this can capitalize on the existing representations in biological ontologies. We discuss the use of a different relationship model than the one provided by RDF and OWL to represent the semantic data. We argue that this leads to a more intuitive and correct way to enter semantic content in the wiki. Furthermore, we show how formal ontologies could be used to increase the usability of the software through type-checking and automatic reasoning.

An erratum to this chapter can be found at http://dx.doi.org/10.1007/11915034_125.

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Author information

Authors and Affiliations

  1. Research Group Ontologies in Medicine, Institute for Medical Informatics, Statistics and Epidemiology, University of Leipzig,  

    Robert Hoehndorf, Michael Backhaus, Heinrich Herre & Frank Loebe

  2. Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Anthropology,  

    Robert Hoehndorf, Kay Prüfer, Michael Backhaus, Janet Kelso & Johann Visagie

  3. Institute for Informatics, University of Leipzig,  

    Robert Hoehndorf, Heinrich Herre & Frank Loebe

Authors
  1. Robert Hoehndorf
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  2. Kay Prüfer
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  3. Michael Backhaus
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  4. Heinrich Herre
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  5. Janet Kelso
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  6. Frank Loebe
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  7. Johann Visagie
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Editor information

Editors and Affiliations

  1. STARLab, Vrije Universiteit Brussel (VUB), Bldg G/10, Pleinlaan 2, 1050, Brussels, Belgium

    Robert Meersman

  2. School of Computer Science and Information Technology, RMIT University, Bld 10.10, 376-392 Swanston Street, 3001, Melbourne, VIC, Australia

    Zahir Tari

  3. Facultad de Informática, Universidad Politécnica de Madrid, Campus de Montegancedo S/N, 28660, Boadilla del Monte, Madrid, Spain

    Pilar Herrero

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© 2006 Springer-Verlag Berlin Heidelberg

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Hoehndorf, R. et al. (2006). A Proposal for a Gene Functions Wiki. In: Meersman, R., Tari, Z., Herrero, P. (eds) On the Move to Meaningful Internet Systems 2006: OTM 2006 Workshops. OTM 2006. Lecture Notes in Computer Science, vol 4277. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11915034_91

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  • DOI: https://doi.org/10.1007/11915034_91

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-48269-7

  • Online ISBN: 978-3-540-48272-7

  • eBook Packages: Computer ScienceComputer Science (R0)

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