Using Indirect protein-protein Interactions for protein Complex Prediction

Protein complexes are fundamental for understanding principles of cellular organizations. Accurate and fast protein complex prediction from the PPI networks of increasing sizes can serve as a guide for biological experiments to discover novel protein complexes. However, protein complex prediction from PPI networks is a hard problem, especially in situations where the PPI network is noisy. We know from previous work that proteins that do not interact, but share interaction partners (level-2 neighbors) often share biological functions. The strength of functional association can be estimated using a topological weight, FS-Weight. Here we study the use of indirect interactions between level-2 neighbors (level-2 interactions) for protein complex prediction. All direct and indirect interactions are first weighted using topological weight (FS-Weight). Interactions with low weight are removed from the network, while level-2 interactions with high weight are introduced into the interaction net...

• Type: Journal
• Year: 2008
• Where: JBCB
• Authors: Hon Nian Chua, Kang Ning, Wing-Kin Sung, Hon Wai Leong, Limsoon Wong
• Keywords: Indirect Interactions, JBCB 2008, Ppi Network, Protein Complex Prediction