Emmert-Streib F, de Matos Simoes R, Glazko G, McDade S, Haibe-Kains B, Holzinger A, Dehmer M, Campbell F. Functional and genetic analysis of the colon cancer network.
BMC Bioinformatics 2014;
15 Suppl 6:S6. [PMID:
25079297 PMCID:
PMC4158620 DOI:
10.1186/1471-2105-15-s6-s6]
[Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023] Open
Abstract
Cancer is a complex disease that has proven to be difficult to understand on the
single-gene level. For this reason a functional elucidation needs to take
interactions among genes on a systems-level into account. In this study, we infer a
colon cancer network from a large-scale gene expression data set by using the method
BC3Net. We provide a structural and a functional analysis of this network and also
connect its molecular interaction structure with the chromosomal locations of the
genes enabling the definition of cis- and trans-interactions. Furthermore, we
investigate the interaction of genes that can be found in close neighborhoods on the
chromosomes to gain insight into regulatory mechanisms. To our knowledge this is the
first study analyzing the genome-scale colon cancer network.
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