IMR Press / FBL / Volume 10 / Issue 2 / DOI: 10.2741/1645

Frontiers in Bioscience-Landmark (FBL) is published by IMR Press from Volume 26 Issue 5 (2021). Previous articles were published by another publisher on a subscription basis, and they are hosted by IMR Press on as a courtesy and upon agreement with Frontiers in Bioscience.

A new strategy of cooperativity of biclustering and hierarchical clustering: a case of analyzing yeast genomic microarray datasets
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1 Department of Biochemistry, School of Pharmaceutical Engineering, Shenyang Pharmaceutical University, Shenyang 110016, China
Front. Biosci. (Landmark Ed) 2005, 10(2), 1619–1627;
Published: 1 May 2005

Hierarchical clustering is difficult to be deployed effectively in finding meaningful subtrees since genes rarely exhibit similar expression pattern across a wide range of conditions. It is also difficult to find a suitable level in cleaving a big hierarchy tree. Biclustering is a promising methodology in the field of the analysis of gene expression data of genechip. Generally it can be employed in identification of gene groups, which show a coherent expression profile across a subset of conditions. But in some cases of biclustering analysis of gene expressions, the genes in one bicluster are involved in more than one functional group, or all genes in one bicluster are involved in unknown functional groups (e.g. pattern VI and VIII in our studies). Then, how to predict the function of genes in these patterns? In the present research, we developed a new strategy of combining both of the clustering methods, hierarchical clustering and biclustering. The reserved conditions in datasets for hierarchical clustering were elicited according to the conditions in biclusters, and after hierarchical clustering, more detailed results in predicting unknown genes in certain patterns were obtained. This strategy of cooperating both of the methods during clustering procedure should be an effective guideline for functional predictions.

Hierarchical Clustering
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