Gene co-expression analysis predicts genetic aberration loci associated with colon cancer metastasis Online publication date: Thu, 18-Sep-2014
by Jie Zhang; Shiwei Ni; Yang Xiang; Jeffrey D. Parvin; Yufeng Yang; Yongjian Zhou; Kun Huang
International Journal of Computational Biology and Drug Design (IJCBDD), Vol. 6, No. 1/2, 2013
Abstract: Gene Co-expression Network (GCN) analysis has been widely used for gene function and disease biomarker discovery. In this study, we present a workflow for identifying GCN associated with colon cancer metastasis. The workflow includes dense network discovery from weighted GCN followed by network activity analysis using a mutual information-based approach to identify gene networks related to metastasis. Our findings suggest several genomic regions as genetic aberrations related to colon cancer malignancy including chr11q13, 20q13, 8q24 and 14q22-23. Our work also demonstrates a novel way of interpreting gene co-expression analysis results besides functional relationships and the effectiveness of the mutual information based network analysis in detecting subtle changes between different disease states.
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