De novo network enrichment approaches have become increasingly popular. Although existing approaches differ in many relevant aspects (optimization criteria, algorithmic implementation, scoring function, etc.), they all aim for extracting connected subnetworks from a larger interaction network. These are significantly enriched with active, i.e. deregulated, biological entities (genes, proteins, metabolites).
Source text:
(List et al., 2016) KeyPathwayMinerWeb: online multi-omics network enrichment. Nucleic Acids Res.
The first online platform for de novo pathway enrichment analysis directly in…
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A comprehensive R-package for the analysis of biological networks including an exact and a heuristic approach to identify functional modules. The BioNet package provides an extensive framework for…
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