title: Network analysis and in silico prediction of protein-protein interactions with applications in drug discovery.
abstract: Protein-protein interactions (PPIs) are vital to maintaining cellular homeostasis. Several PPI dysregulations have been implicated in the etiology of various diseases and hence PPIs have emerged as promising targets for drug discovery. Surface residues and hotspot residues at the interface of PPIs form the core regions, which play a key role in modulating cellular processes such as signal transduction and are used as starting points for drug design. In this review, we briefly discuss how PPI networks (PPINs) inferred from experimentally characterized PPI data have been utilized for knowledge discovery and how in silico approaches to PPI characterization can contribute to PPIN-based biological research. Next, we describe the principles of in silico PPI prediction and survey the existing PPI and PPI site prediction servers that are useful for drug discovery. Finally, we discuss the potential of in silico PPI prediction in drug discovery.
authors.affiliation: National Institutes of Biomedical Innovation, Health and Nutrition, 7-6-8 Saito Asagi, Ibaraki, Osaka 567-0085, Japan. Electronic address: yoichi@nibiohn.go.jp.
authors.forename: Yoichi
authors.initials: Y
authors.lastname: Murakami
authors.affiliation: National Institutes of Biomedical Innovation, Health and Nutrition, 7-6-8 Saito Asagi, Ibaraki, Osaka 567-0085, Japan. Electronic address: lokesh@nibiohn.go.jp.
authors.forename: Lokesh P
authors.initials: LP
authors.lastname: Tripathi
authors.affiliation: National Institutes of Biomedical Innovation, Health and Nutrition, 7-6-8 Saito Asagi, Ibaraki, Osaka 567-0085, Japan.
authors.forename: Philip
authors.initials: P
authors.lastname: Prathipati
authors.affiliation: National Institutes of Biomedical Innovation, Health and Nutrition, 7-6-8 Saito Asagi, Ibaraki, Osaka 567-0085, Japan. Electronic address: kenji@nibiohn.go.jp.
authors.forename: Kenji
authors.initials: K
authors.lastname: Mizuguchi
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D055808:Drug Discovery / Q000379:methods*; D006801:Humans; D058990:Molecular Targeted Therapy; D025941:Protein Interaction Mapping / Q000379:methods*