Consistent dissection of the protein interaction network by combining global and local metrics
1 Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
2 Division of Infectious Diseases, School of Medicine, Stanford University, Stanford, CA 94035, USA
3 Computational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Genome Biology 2007, 8:R271 doi:10.1186/gb-2007-8-12-r271Published: 21 December 2007
We propose a new network decomposition method to systematically identify protein interaction modules in the protein interaction network. Our method incorporates both a global metric and a local metric for balance and consistency. We have compared the performance of our method with several earlier approaches on both simulated and real datasets using different criteria, and show that our method is more robust to network alterations and more effective at discovering functional protein modules.