title: Integrated analysis of multiple data sources reveals modular structure of biological networks.
abstract: It has been a challenging task to integrate high-throughput data into investigations of the systematic and dynamic organization of biological networks. Here, we presented a simple hierarchical clustering algorithm that goes a long way to achieve this aim. Our method effectively reveals the modular structure of the yeast protein-protein interaction network and distinguishes protein complexes from functional modules by integrating high-throughput protein-protein interaction data with the added subcellular localization and expression profile data. Furthermore, we take advantage of the detected modules to provide a reliably functional context for the uncharacterized components within modules. On the other hand, the integration of various protein-protein association information makes our method robust to false-positives, especially for derived protein complexes. More importantly, this simple method can be extended naturally to other types of data fusion and provides a framework for the study of more comprehensive properties of the biological network and other forms of complex networks.
authors.affiliation: Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, PR China.
authors.forename: Hongchao
authors.initials: H
authors.lastname: Lu
authors.forename: Baochen
authors.initials: B
authors.lastname: Shi
authors.forename: Gaowei
authors.initials: G
authors.lastname: Wu
authors.forename: Yong
authors.initials: Y
authors.lastname: Zhang
authors.forename: Xiaopeng
authors.initials: X
authors.lastname: Zhu
authors.forename: Zhihua
authors.initials: Z
authors.lastname: Zhang
authors.forename: Changning
authors.initials: C
authors.lastname: Liu
authors.forename: Yi
authors.initials: Y
authors.lastname: Zhao
authors.forename: Tao
authors.initials: T
authors.lastname: Wu
authors.forename: Jie
authors.initials: J
authors.lastname: Wang
authors.forename: Runsheng
authors.initials: R
authors.lastname: Chen
mesh_terms: D000465:Algorithms; D016000:Cluster Analysis; D003198:Computer Simulation; D003628:Database Management Systems; D030562:Databases, Protein; D008954:Models, Biological; D025941:Protein Interaction Mapping / Q000379:methods*; D020543:Proteome / Q000378:metabolism*; D012441:Saccharomyces cerevisiae / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology*; D018511:Systems Integration; D014584:User-Computer Interface
chemical_list: D020543:Proteome; D029701:Saccharomyces cerevisiae Proteins