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Towards a Classification Approach using Meta-Biclustering: Impact of Discretization in the Analysis of Expression Time Series

Carreiro, Andre Valerio ; Ferreira, Artur J. ; Figueiredo, Mario A. T. ; Cordeiro Madeira, Sara

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)


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Abstract:
Biclustering has been recognized as a remarkably effective method for discovering local temporal expression patterns and unraveling potential regulatory mechanisms, essential to understanding complex biomedical processes, such as disease progression and drug response. In this work, we propose a classification approach based on meta-biclusters (a set of similar biclusters) applied to prognostic prediction. We use real clinical expression time series to predict the response of patients with multiple sclerosis to treatment with Interferon-!. As compared to previous approaches, the main advantages of this strategy are the interpretability of the results and the reduction of data dimensionality, due to biclustering. This would allow the identification of the genes and time points which are most promising for explaining different types of response profiles, according to clinical knowledge. We assess the impact of different unsupervised and supervised discretization techniques on the classification accuracy. The experimental results show that, in many cases, the use of these discretization methods improves the classification accuracy, as compared to the use of the original features.


Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Towards a Classification Approach using Meta-Biclustering: Impact of Discretization in the Analysis of Expression Time Series. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 9(3): Special Issue: Selected extended papers of the 6th International Conference on Practical Applications of Computational Biology and Bioinformatics, Salamanca, Spain, 2012

Online-Journal: http://journal.imbio.de/article.php?aid=207
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2012/5217



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