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Open Access Methodology article

Predicting the points of interaction of small molecules in the NF-κB pathway

Yogendra Patel1, Catherine A Heyward2, Michael RH White23* and Douglas B Kell1*

Author Affiliations

1 Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, 131 Princess Street, M1 7DN, UK

2 Institute of Integrative Biology, University of Liverpool, Liverpool, L69 7ZB, UK

3 Faculty of Life Sciences, Michael Smith Building, Oxford Road, University of Manchester, Manchester, M13 9PT, UK

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BMC Systems Biology 2011, 5:32  doi:10.1186/1752-0509-5-32

Published: 22 February 2011

Abstract

Background

The similarity property principle has been used extensively in drug discovery to identify small compounds that interact with specific drug targets. Here we show it can be applied to identify the interactions of small molecules within the NF-κB signalling pathway.

Results

Clusters that contain compounds with a predominant interaction within the pathway were created, which were then used to predict the interaction of compounds not included in the clustering analysis.

Conclusions

The technique successfully predicted the points of interactions of compounds that are known to interact with the NF-κB pathway. The method was also shown to be successful when compounds for which the interaction points were unknown were included in the clustering analysis.