Discriminant Analysis Methods for Microarray Data Classification

Chapter · January 1970with5 Reads
DOI: 10.1007/978-3-540-89378-3_26 · Source: DBLP
In book: AI 2008: Advances in Artificial Intelligence, pp.268-277
The studies of DNA Microarray technologies have produced high-dimensional data. In order to alleviate the “curse of dimensionality” and better analyze these data, many linear and non-linear dimension reduction methods such as PCA and LLE have been widely studied. In this paper, we report our work on microarray data classification with three latest proposed discriminant analysis methods: Locality Sensitive Discriminant Analysis (LSDA), Spectral Regression Discriminant Analysis (SRDA), and Supervised Neighborhood Preserving Embedding (S-NPE). Results of experiments on four data sets show the excellent effectiveness and efficiency of SRDA.
  • [Show abstract] [Hide abstract] ABSTRACT: The family of discriminant neighborhood embedding (DNE) methods is typical graph-based methods for dimension reduction, and has been successfully applied to face recognition. This paper proposes a new variant of DNE, called similarity-balanced discriminant neighborhood embedding (SBDNE) and applies it to cancer classification using gene expression data. By introducing a novel similarity function, SBDNE deals with two data points in the same class and the different classes with different ways. The homogeneous and heterogeneous neighbors are selected according to the new similarity function instead of the Euclidean distance. SBDNE constructs two adjacent graphs, or between-class adjacent graph and within-class adjacent graph, using the new similarity function. According to these two adjacent graphs, we can generate the local between-class scatter and the local within-class scatter, respectively. Thus, SBDNE can maximize the between-class scatter and simultaneously minimize the within-class scatter to find the optimal projection matrix. Experimental results on six microarray datasets show that SBDNE is a promising method for cancer classification. Copyright © 2015 Elsevier Ltd. All rights reserved.
    Article · Jul 2015