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Discovering the cellular-localized functional modules and modular interactions in response to liver cancer |
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| Authors: | Zhu Jing Guo Zheng Yang Da Zhang Min Wang Jing Wang Chenguang |
| Institution: | 1. School of Life Science and Bioinformatics Centre, University of Electronic Science and Technology of China, Chengdu 610054,P.R.China 2. School of Life Science and Bioinformatics Centre, University of Electronic Science and Technology of China, Chengdu 610054,P.R.China;Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086,P.R.China 3. Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086,P.R.China |
| Abstract: | In this paper, we firstly identify the functional modules enriched with differentially expressed genes (DEGs) and characterized by biological processes in specific cellular locations, based on gene ontology (GO) and microarray data. Then, we further define and filter disease relevant signature modules according to the ranking of the disease discriminating abilities of the pre-selected functional modules. At last, we analyze the potential way by which they cooperate towards human disease. Application of the proposed method to the analysis of a liver cancer dataset shows that, using the same false discovery rate (FDR) threshold, we can find more biologically meaningful and detailed processes by using the cellular localization information. Some biological evidences support the relevancy of our biological modules to the disease mechanism. |
| Keywords: | microarray Gene Ontology functional module cellular location liver cancer |
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