Abstract
We present a methodology for extending pre-defined protein sets representing cellular pathways and processes by mapping them onto a protein-protein interaction network, and extending them to include densely interconnected interaction partners. The added proteins display distinctive network topological features and molecular function annotations, and can be proposed as putative new components, and/or as regulators of the communication between the different cellular processes. Finally, these extended pathways and processes are used to analyze their enrichment in cancer mutated genes. Significant associations between mutated genes and certain processes are identified, enabling an analysis of the influence of previously non-annotated cancer mutated genes.
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Glaab, E., Baudot, A., Krasnogor, N. et al. PathExpand: Extending biological pathways using molecular interaction networks. Nat Prec (2011). https://doi.org/10.1038/npre.2011.5639.1
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DOI: https://doi.org/10.1038/npre.2011.5639.1