Selecting differentially expressed genes for colon tumor classification

Fujarewicz, Krzysztof ; Wiench, Małgorzata

International Journal of Applied Mathematics and Computer Science, Tome 13 (2003), p. 327-335 / Harvested from The Polish Digital Mathematics Library

Résumé

DNA microarrays provide a new technique of measuring gene expression, which has attracted a lot of research interest in recent years. It was suggested that gene expression data from microarrays (biochips) can be employed in many biomedical areas, e.g., in cancer classification. Although several, new and existing, methods of classification were tested, a selection of proper (optimal) set of genes, the expressions of which can serve during classification, is still an open problem. Recently we have proposed a new recursive feature replacement (RFR) algorithm for choosing a suboptimal set of genes. The algorithm uses the support vector machines (SVM) technique. In this paper we use the RFR method for finding suboptimal gene subsets for tumornormal colon tissue classification. The obtained results are compared with the results of applying other methods recently proposed in the literature. The comparison shows that the RFR method is able to find the smallest gene subset (only six genes) that gives no misclassifications in leave-one-out cross-validation for a tumornormal colon data set. In this sense the RFR algorithm outperforms all other investigated methods.

Détail

Publié le : 2003-01-01

Zbl 1035.92018

EUDML-ID : urn:eudml:doc:207647

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