Please use this identifier to cite or link to this item: http://repositorio.unicamp.br/jspui/handle/REPOSIP/76676
Type: Artigo de periódico
Title: A proposal for direct-ordering gene expression data by self-organising maps
Author: Gomes, LDCT
Von Zuban, FJ
Moscato, P
Abstract: Microarray experiments are employed to simultaneously measure the expression level of thousands of genes. The possible applications of the available datasets include: inference of individual gene functions; identification of genes from specific tissues; analysis of the behaviour of gene expression levels under various environmental conditions and under different cell cycle stages; and characterisation of inappropriately transcribed genes and several genetic diseases. A fundamental step in the analysis of gene expression data is the detection of genes presenting similar expression patterns. Considering that microarray technology allows the inspection of a wide range of aspects related to the genome at once, and therefore thousands of genes may be involved in an experiment, new computational tools for data analysis and alternative visualisation strategies are crucial to understand and uncover information present in the data. In this work, the gene ordering problem is modelled as a shortest-path problem and we present an algorithm based on competitive learning for rearranging gene expression data in a linear order aiming to reveal trends in large amount of data. The effectiveness of the algorithm is attested by means of computational simulations performed on publicly accessible data sets. (C) 2004 Elsevier B.V. All rights reserved.
Subject: microarray
gene expression
combinatorial optimisation
hierarchical clustering
direct-ordering
artificial neural networks
competitive learning
self-organising maps
Country: Holanda
Editor: Elsevier Science Bv
Rights: fechado
Identifier DOI: 10.1016/j.asoc.2004.03.010
Date Issue: 2004
Appears in Collections:Artigos e Materiais de Revistas Científicas - Unicamp

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