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DHC: A density-based hierarchical clustering method for time series gene expression data

Publication ,  Conference
Jiang, D; Pei, J; Zhang, A
Published in: Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003
January 1, 2003

Clustering the time series gene expression data is an important task in bioinformatics research and biomedical applications. Recently, some clustering methods have been adapted or proposed. However, some concerns still remain, such as the robustness of the mining methods, as well as the quality and the interpretability of the mining results. In this paper, we tackle the problem of effectively clustering time series gene expression data by proposing algorithm DHC, a density-based, hierarchical clustering method. We use a density-based approach to identify the clusters such that the clustering results are of high quality and robustness. Moreover, The mining result is in the form of a density tree, which uncovers the embedded clusters in a data set. The inner-structures, the borders and the outliers of the clusters can be further investigated using the attraction tree, which is an intermediate result of the mining. By these two trees, the internal structure of the data set can be visualized effectively. Our empirical evaluation using some real-world data sets show that the method is effective, robust and scalable. It matches the ground truth provided by bioinformatics experts very well in the sample data sets.

Duke Scholars

Published In

Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003

DOI

ISBN

9780769519074

Publication Date

January 1, 2003

Start / End Page

393 / 400
 

Citation

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Jiang, D., Pei, J., & Zhang, A. (2003). DHC: A density-based hierarchical clustering method for time series gene expression data. In Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003 (pp. 393–400). https://doi.org/10.1109/BIBE.2003.1188978
Jiang, D., J. Pei, and A. Zhang. “DHC: A density-based hierarchical clustering method for time series gene expression data.” In Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003, 393–400, 2003. https://doi.org/10.1109/BIBE.2003.1188978.
Jiang D, Pei J, Zhang A. DHC: A density-based hierarchical clustering method for time series gene expression data. In: Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003. 2003. p. 393–400.
Jiang, D., et al. “DHC: A density-based hierarchical clustering method for time series gene expression data.” Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003, 2003, pp. 393–400. Scopus, doi:10.1109/BIBE.2003.1188978.
Jiang D, Pei J, Zhang A. DHC: A density-based hierarchical clustering method for time series gene expression data. Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003. 2003. p. 393–400.

Published In

Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003

DOI

ISBN

9780769519074

Publication Date

January 1, 2003

Start / End Page

393 / 400