Functional and genetic analysis of the colon cancer network

Frank Emmert-Streib, Ricardo Simoes de Matos, Galina Glazko, Simon McDade, Benjamin Haibe-Kanis, Andreas Holzinger, Matthias Dehmer, Frederick Charles Campbell

Research output: Contribution to journalArticle

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.
LanguageEnglish
Pages1-15
JournalBMC Bioinformatics
Volume15
Issue numberS6
DOIs
StatusPublished - 2014

Fingerprint

Colonic Neoplasms
Cancer
Genes
Gene
Interaction
Functional Analysis
Gene Expression Data
Molecular Structure
Functional analysis
Molecular interactions
Chromosome
Chromosomes
Genome
Gene expression
Gene Expression
Neoplasms

Keywords

  • Cancer research
  • Health Informatics
  • Data Science
  • Network Science
  • Graph-Based Data Mining

ASJC Scopus subject areas

  • Information Systems

Fields of Expertise

  • Human- & Biotechnology

Treatment code (Nähere Zuordnung)

  • Basic - Fundamental (Grundlagenforschung)

Cite this

Emmert-Streib, F., Simoes de Matos, R., Glazko, G., McDade, S., Haibe-Kanis, B., Holzinger, A., ... Campbell, F. C. (2014). Functional and genetic analysis of the colon cancer network. BMC Bioinformatics , 15(S6), 1-15. DOI: 10.1186/1471-2105-15-S6-S6

Functional and genetic analysis of the colon cancer network. / Emmert-Streib, Frank; Simoes de Matos, Ricardo; Glazko, Galina; McDade, Simon; Haibe-Kanis, Benjamin; Holzinger, Andreas; Dehmer, Matthias; Campbell, Frederick Charles.

In: BMC Bioinformatics , Vol. 15, No. S6, 2014, p. 1-15.

Research output: Contribution to journalArticle

Emmert-Streib, F, Simoes de Matos, R, Glazko, G, McDade, S, Haibe-Kanis, B, Holzinger, A, Dehmer, M & Campbell, FC 2014, 'Functional and genetic analysis of the colon cancer network' BMC Bioinformatics , vol 15, no. S6, pp. 1-15. DOI: 10.1186/1471-2105-15-S6-S6
Emmert-Streib F, Simoes de Matos R, Glazko G, McDade S, Haibe-Kanis B, Holzinger A et al. Functional and genetic analysis of the colon cancer network. BMC Bioinformatics . 2014;15(S6):1-15. Available from, DOI: 10.1186/1471-2105-15-S6-S6
Emmert-Streib, Frank ; Simoes de Matos, Ricardo ; Glazko, Galina ; McDade, Simon ; Haibe-Kanis, Benjamin ; Holzinger, Andreas ; Dehmer, Matthias ; Campbell, Frederick Charles. / Functional and genetic analysis of the colon cancer network. In: BMC Bioinformatics . 2014 ; Vol. 15, No. S6. pp. 1-15
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