IDEAS home Printed from https://ideas.repec.org/a/ids/ijnvor/v8y2011i1-2p158-178.html
   My bibliography  Save this article

Discovering cancer biomarkers: from DNA to communities of genes

Author

Listed:
  • Mohammed Alshalalfa
  • Tansel Ozyer
  • Reda Alhajj
  • Jon Rokne

Abstract

In this paper, we consider genes as actors of a social network, a research area that has not yet received attention in the literature of social network mining and analysis. Even though our research project covers both genes and proteins, we concentrate in this paper on gene; we first try to describe the gene expression data and how gene interactions can be realised as a social network. Then we describe how data mining techniques could reveal important information by identifying disease biomarkers from the social communities of genes. This is possible because of the way genes interact and form communities that are anticipated to have certain effects on the different processes that take place within an organism. Gene communities both contribute to the development of an organism by coding proteins and cause serious diseases. In this paper, we concentrate on genes that act as cancer biomarkers. We apply a multiobjective clustering approach to produce alternative clustering solutions and then derive a matrix that reflects the link between genes based on their common occurrence on the same cluster within different alternative solutions. The latter matrix leads to the social network of genes, which is then analysed to discover the communities and the central genes within each community. The latter genes are studied further as cancer biomarkers. The test results are promising in demonstrating the applicability and effectiveness of the developed mining-based methodology.

Suggested Citation

  • Mohammed Alshalalfa & Tansel Ozyer & Reda Alhajj & Jon Rokne, 2011. "Discovering cancer biomarkers: from DNA to communities of genes," International Journal of Networking and Virtual Organisations, Inderscience Enterprises Ltd, vol. 8(1/2), pages 158-178.
  • Handle: RePEc:ids:ijnvor:v:8:y:2011:i:1/2:p:158-178
    as

    Download full text from publisher

    File URL: http://www.inderscience.com/link.php?id=37166
    Download Restriction: Access to full text is restricted to subscribers.
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:ids:ijnvor:v:8:y:2011:i:1/2:p:158-178. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sarah Parker (email available below). General contact details of provider: http://www.inderscience.com/browse/index.php?journalID=22 .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.