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Gene set enrichment; a problem of pathways

Davies, MN and Meaburn, EL and Schalkwyk, LC (2010) 'Gene set enrichment; a problem of pathways.' Briefings in Functional Genomics, 9 (5-6). pp. 385-390. ISSN 2041-2649

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Abstract

Gene Set Enrichment (GSE) is a computational technique which determines whether a priori defined set of genes show statistically significant differential expression between two phenotypes. Currently, the gene sets used for GSE are derived from annotation or pathway databases, which often contain computationally based and unrepresentative data. Here, we propose a novel approach for the generation of comprehensive and biologically derived gene sets, deriving sets through the application of machine learning techniques to gene expression data. These gene sets can be produced for specific tissues, developmental stages or environments. They provide a powerful and functionally meaningful way in which to mine genomewide association and next generation sequencing data in order to identify disease-associated variants and pathways. © The Author 2010. Published by Oxford University Press. All rights reserved.

Item Type: Article
Uncontrolled Keywords: gene set enrichment; annotation database; gene expression data; machine learning; next generation sequencing
Subjects: Q Science > QH Natural history > QH426 Genetics
Divisions: Faculty of Science and Health
Faculty of Science and Health > Life Sciences, School of
SWORD Depositor: Elements
Depositing User: Elements
Date Deposited: 14 Nov 2014 16:48
Last Modified: 15 Jan 2022 00:41
URI: http://repository.essex.ac.uk/id/eprint/11011

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