title: Network fingerprint: a knowledge-based characterization of biomedical networks.
abstract: It can be difficult for biomedical researchers to understand complex molecular networks due to their unfamiliarity with the mathematical concepts employed. To represent molecular networks with clear meanings and familiar forms for biomedical researchers, we introduce a knowledge-based computational framework to decipher biomedical networks by making systematic comparisons to well-studied "basic networks". A biomedical network is characterized as a spectrum-like vector called "network fingerprint", which contains similarities to basic networks. This knowledge-based multidimensional characterization provides a more intuitive way to decipher molecular networks, especially for large-scale network comparisons and clustering analyses. As an example, we extracted network fingerprints of 44 disease networks in the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. The comparisons among the network fingerprints of disease networks revealed informative disease-disease and disease-signaling pathway associations, illustrating that the network fingerprinting framework will lead to new approaches for better understanding of biomedical networks.
authors: Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing 100850, China.|International Cooperation Laboratory on Signal Transduction, Eastern Hepatobiliary Surgery Institute, Second Military Medical University, Shanghai 200433, China.
authors: Xiuliang
authors: X
authors: Cui
authors: Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing 100850, China.
authors: Haochen
authors: H
authors: He
authors: Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing 100850, China.
authors: Fuchu
authors: F
authors: He
authors: Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing 100850, China.
authors: Shengqi
authors: S
authors: Wang
authors: Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing 100850, China.
authors: Fei
authors: F
authors: Li
authors: Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing 100850, China.
authors: Xiaochen
authors: X
authors: Bo
mesh_terms: D000465:Algorithms; D000818:Animals; D003198:Computer Simulation; D006801:Humans; D051188:Knowledge Bases; D008954:Models, Biological; D010363:Pattern Recognition, Automated / Q000379:methods*; D025941:Protein Interaction Mapping / Q000379:methods*; D020543:Proteome / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology*
chemical_list: D020543:Proteome