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Cancer classification based on microarray gene expression data using a principal component accumulation method

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Abstract

The classification of cancer is a major research topic in bioinformatics. The nature of high dimensionality and small size associated with gene expression data, however, makes the classification quite challenging. Although principal component analysis (PCA) is of particular interest for the high-dimensional data, it may overemphasize some aspects and ignore some other important information contained in the richly complex data, because it displays only the difference in the first two- or three-dimensional PC subspaces. Based on PCA, a principal component accumulation (PCAcc) method was proposed. It employs the information contained in multiple PC subspaces and improves the class separability of cancers. The effectiveness of the present method was evaluated by four commonly used gene expression datasets, and the results show that the method performs well for cancer classification.

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Authors and Affiliations

  1. Research Center for Analytical Sciences, College of Chemistry, Nankai University, Tianjin, 300071, China

    JingJing Liu, WenSheng Cai & XueGuang Shao

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  1. JingJing Liu
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  2. WenSheng Cai
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  3. XueGuang Shao
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Correspondence to XueGuang Shao.

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Liu, J., Cai, W. & Shao, X. Cancer classification based on microarray gene expression data using a principal component accumulation method. Sci. China Chem. 54, 802–811 (2011). https://doi.org/10.1007/s11426-011-4263-5

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