A Combination of Protein-Protein Interaction Network Topological and Biological Process Features for Multiprotein Complex Detection

We introduce SVM-Net, a method for detecting multiprotein complexes. Detecting multiprotein complexes is becoming crucial to the study and understanding of system biology and it could be a way to reveal the biochemical functions of a protein. Most of the recently developed methods focus on topological information to detect multiprotein complexes. In this chapter, biological and topological features characterizing protein complexes are extracted and used in conjunction with support vector machines to detect multiprotein complexes from the protein-protein interaction network. SVM-Net was able to detect 76 functional complexes out of 81 reference complexes with high precision. In comparison with state-of-the-art methods, the evaluation results indicate that the SVM-Net has great potential in detecting multiprotein complexes.