Multi-stage filtering for improving confidence level and determining dominant clusters in clustering algorithms of gene expression data

Kasim, Shahreen and Deris, Safaai and M. Othman, Razib (2013) Multi-stage filtering for improving confidence level and determining dominant clusters in clustering algorithms of gene expression data. Computer in Biology and Medicine, 43 (9). ISSN 0010-4825

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Official URL: http://www.journals.elsevier.com/computers-in-biol...

Abstract

A drastic improvement in the analysis of gene expression has lead to new discoveries in bioinformatics research. In order to analyse the gene expression data, fuzzy clustering algorithms are widely used. However, the resulting analyses from these specific types of algorithms may lead to confusion in hypotheses with regard to the suggestion of dominant function for genes of interest. Besides that, the current fuzzy clustering algorithms do not conduct a thorough analysis of genes with low membership values. Therefore, we present a novel computational framework called the "multi-stage filtering- Clustering Functional Annotation" (msf-CluFA) for clustering gene expression data. The framework consists of four components: fuzzy c-means clustering (msf-CluFA-0), achieving dominant cluster (msf- CluFA-I), improving confidence level (msf-CluFA-2) and combination of msf-CluFA-0, msf-CluFA-1 and msf-CluFA-2 (msf-CluFA-3). By employing double filtering in msf-CluFA-1 and aprion algorithms in msf-CluFA-2, our new framework is capable of determining the dominant clusters and improving the confidence level of genes with lower membership values by means of which the unknown genes can be predicted.

Item Type:Article
Uncontrolled Keywords:confidence level; dominant cluster; fuzzy clustering; gene expression
Subjects:Q Science > QP Physiology
Divisions:Faculty of Science Computer and Information Technology > Department of Information System
ID Code:4108
Deposited By:Normajihan Abd. Rahman
Deposited On:29 Aug 2013 11:27
Last Modified:29 Aug 2013 11:27

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