Global topological features of cancer proteins in the human interactome
Open Access
- 14 July 2006
- journal article
- research article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 22 (18), 2291-2297
- https://doi.org/10.1093/bioinformatics/btl390
Abstract
Motivation: The study of interactomes, or networks of protein-protein interactions, is increasingly providing valuable information on biological systems. Here we report a study of cancer proteins in an extensive human protein-protein interaction network constructed by computational methods. Results: We show that human proteins translated from known cancer genes exhibit a network topology that is different from that of proteins not documented as being mutated in cancer. In particular, cancer proteins show an increase in the number of proteins they interact with. They also appear to participate in central hubs rather than peripheral ones, mirroring their greater centrality and participation in networks that form the backbone of the proteome. Moreover, we show that cancer proteins contain a high ratio of highly promiscuous structural domains, i.e., domains with a high propensity for mediating protein interactions. These observations indicate an underlying evolutionary distinction between the two groups of proteins, reflecting the central roles of proteins, whose mutations lead to cancer. Contact:paul.bates@cancer.org.uk Supplementary information: The interactome data are available though the PIP (Potential Interactions of Proteins) web server at Author Webpage. Further additional material is available at Author WebpageKeywords
This publication has 41 references indexed in Scilit:
- Interactome-transcriptome analysis reveals the high centrality of genes differentially expressed in lung cancer tissuesBioinformatics, 2005
- Uncovering the overlapping community structure of complex networks in nature and societyNature, 2005
- Conserved patterns of protein interaction in multiple speciesProceedings of the National Academy of Sciences, 2005
- The MIPS mammalian protein–protein interaction databaseBioinformatics, 2004
- A census of human cancer genesNature Reviews Cancer, 2004
- Development of Human Protein Reference Database as an Initial Platform for Approaching Systems Biology in HumansGenome Research, 2003
- Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometryNature, 2002
- Functional organization of the yeast proteome by systematic analysis of protein complexesNature, 2002
- A comprehensive two-hybrid analysis to explore the yeast protein interactomeProceedings of the National Academy of Sciences, 2001
- The Protein Data BankNucleic Acids Research, 2000