title: MOfinder: a novel algorithm for detecting overlapping modules from protein-protein interaction network.
abstract: Since organism development and many critical cell biology processes are organized in modular patterns, many algorithms have been proposed to detect modules. In this study, a new method, MOfinder, was developed to detect overlapping modules in a protein-protein interaction (PPI) network. We demonstrate that our method is more accurate than other 5 methods. Then, we applied MOfinder to yeast and human PPI network and explored the overlapping information. Using the overlapping modules of human PPI network, we constructed the module-module communication network. Functional annotation showed that the immune-related and cancer-related proteins were always together and present in the same modules, which offer some clues for immune therapy for cancer. Our study around overlapping modules suggests a new perspective on the analysis of PPI network and improves our understanding of disease.
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.
authors.forename: Qi
authors.initials: Q
authors.lastname: Yu
authors.forename: Gong-Hua
authors.initials: GH
authors.lastname: Li
authors.forename: Jing-Fei
authors.initials: JF
authors.lastname: Huang
mesh_terms: D000465:Algorithms; D030562:Databases, Protein; D006801:Humans; D009369:Neoplasms / Q000276:immunology / Q000628:therapy; D025941:Protein Interaction Mapping / Q000379:methods*; D060066:Protein Interaction Maps; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism*; D012984:Software
chemical_list: D011506:Proteins