메뉴 건너뛰기




Volumn 157, Issue 10, 2009, Pages 2416-2424

Integration of topological measures for eliminating non-specific interactions in protein interaction networks

Author keywords

Betweenness centrality; Clustering coefficient; Graph clustering; Line graph transformation; Protein interaction networks

Indexed keywords

BETWEENNESS CENTRALITY; CLUSTERING COEFFICIENT; GRAPH CLUSTERING; LINE GRAPH TRANSFORMATION; PROTEIN INTERACTION NETWORKS;

EID: 67349128582     PISSN: 0166218X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.dam.2008.06.034     Document Type: Article
Times cited : (5)

References (30)
  • 1
    • 13444272070 scopus 로고    scopus 로고
    • The biomolecular interaction network database and related tools 2005 update
    • Alfarano C. The biomolecular interaction network database and related tools 2005 update. Nucleic Acids Res. 33 S1 (2005) D418-D424
    • (2005) Nucleic Acids Res. , vol.33 , Issue.SUPPL.1
    • Alfarano, C.1
  • 2
    • 85044705992 scopus 로고    scopus 로고
    • An automated method for finding molecular complexes in large protein interaction networks
    • G.D. Bader, C.W.V. Hogue, An automated method for finding molecular complexes in large protein interaction networks, BMC Bioinformatics 4 (2)
    • BMC Bioinformatics , vol.4 , Issue.2
    • Bader, G.D.1    Hogue, C.W.V.2
  • 3
    • 2342469914 scopus 로고    scopus 로고
    • Stochastic model of protein-protein interaction: Why signaling proteins need to be colocalized
    • Batada N.N., Shepp L.A., and Siegmund D.O. Stochastic model of protein-protein interaction: Why signaling proteins need to be colocalized. Proc. Natl. Acad. Sci. 101 17 (2004) 6445-6449
    • (2004) Proc. Natl. Acad. Sci. , vol.101 , Issue.17 , pp. 6445-6449
    • Batada, N.N.1    Shepp, L.A.2    Siegmund, D.O.3
  • 4
    • 10044246957 scopus 로고    scopus 로고
    • Springer, Berlin Ch. Pajek - Analysis and Visualization of Large Networks, pp. 77-103
    • Batagelj V., and Mrvar A. Graph Drawing Software (2003), Springer, Berlin Ch. Pajek - Analysis and Visualization of Large Networks, pp. 77-103
    • (2003) Graph Drawing Software
    • Batagelj, V.1    Mrvar, A.2
  • 7
    • 33751255087 scopus 로고    scopus 로고
    • Evaluation of clustering algorithms for protein-protein interaction networks
    • Brohée S., and van Helden J. Evaluation of clustering algorithms for protein-protein interaction networks. BMC Bioinformatics 7 1 (2006) 488
    • (2006) BMC Bioinformatics , vol.7 , Issue.1 , pp. 488
    • Brohée, S.1    van Helden, J.2
  • 8
    • 33748701649 scopus 로고    scopus 로고
    • Detecting functional modules in the yeast protein-protein interaction network
    • Chen J., and Yuan B. Detecting functional modules in the yeast protein-protein interaction network. Bioinformatics 22 18 (2006) 2283-2290
    • (2006) Bioinformatics , vol.22 , Issue.18 , pp. 2283-2290
    • Chen, J.1    Yuan, B.2
  • 9
    • 0036580169 scopus 로고    scopus 로고
    • Protein interactions: Two methods for assessment of the reliability of high throughput observations
    • Deane C.M., Salwinski L., Xenarios I., and Eisenberg D. Protein interactions: Two methods for assessment of the reliability of high throughput observations. Mol. Cell. Proteomics 1 5 (2002) 349-356
    • (2002) Mol. Cell. Proteomics , vol.1 , Issue.5 , pp. 349-356
    • Deane, C.M.1    Salwinski, L.2    Xenarios, I.3    Eisenberg, D.4
  • 10
    • 31044448435 scopus 로고    scopus 로고
    • From the cover: A simple physical model for scaling in protein-protein interaction networks
    • Deeds E.J., Ashenberg O., and Shakhnovich E.I. From the cover: A simple physical model for scaling in protein-protein interaction networks. Proc. Natl. Acad. Sci. 103 2 (2006) 311-316
    • (2006) Proc. Natl. Acad. Sci. , vol.103 , Issue.2 , pp. 311-316
    • Deeds, E.J.1    Ashenberg, O.2    Shakhnovich, E.I.3
  • 11
    • 0009090117 scopus 로고
    • Centered graphs and the construction of ego networks
    • Freeman L.C. Centered graphs and the construction of ego networks. Math. Social Sci. 3 (1982) 291-304
    • (1982) Math. Social Sci. , vol.3 , pp. 291-304
    • Freeman, L.C.1
  • 16
    • 2442674422 scopus 로고    scopus 로고
    • G.R.G. Lanckriet, M. Deng, N. Cristianini, M.I. Jordan, W.S. Noble, Kernel-based data fusion and its application to protein function prediction in yeast, in: Proceedings of the Pacific Symposium on Biocomputing, PSB2004, 2004, pp. 300-311
    • G.R.G. Lanckriet, M. Deng, N. Cristianini, M.I. Jordan, W.S. Noble, Kernel-based data fusion and its application to protein function prediction in yeast, in: Proceedings of the Pacific Symposium on Biocomputing, PSB2004, 2004, pp. 300-311
  • 17
    • 9444239213 scopus 로고    scopus 로고
    • A probabilistic functional network of yeast genes
    • Lee I., Date S.V., Adai A.T., and Marcotte E.M. A probabilistic functional network of yeast genes. Science 306 (2004) 1555-1558
    • (2004) Science , vol.306 , pp. 1555-1558
    • Lee, I.1    Date, S.V.2    Adai, A.T.3    Marcotte, E.M.4
  • 18
    • 1542271409 scopus 로고    scopus 로고
    • Predicting protein function from protein/protein interaction data: A probabilistic approach
    • Letovsky S., and Kasif S. Predicting protein function from protein/protein interaction data: A probabilistic approach. Bioinformatics 19 (2003) i197-i204
    • (2003) Bioinformatics , vol.19
    • Letovsky, S.1    Kasif, S.2
  • 20
    • 29144442904 scopus 로고    scopus 로고
    • Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps
    • Nabieva E., Jim K., Agarwal A., Chazelle B., and Singh M. Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps. Bioinformatics 21 S1 (2005) i302-i310
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL.1
    • Nabieva, E.1    Jim, K.2    Agarwal, A.3    Chazelle, B.4    Singh, M.5
  • 21
    • 0036493195 scopus 로고    scopus 로고
    • Interaction generality, a measurement to assess the reliability of a protein-protein interaction
    • Saito R., Suzuki H., and Hayashizaki Y. Interaction generality, a measurement to assess the reliability of a protein-protein interaction. Nucleic Acids Res. 30 5 (2002) 1163-1168
    • (2002) Nucleic Acids Res. , vol.30 , Issue.5 , pp. 1163-1168
    • Saito, R.1    Suzuki, H.2    Hayashizaki, Y.3
  • 28
    • 0037161731 scopus 로고    scopus 로고
    • Comparative assessment of large-scale data sets of protein-protein interactions
    • von Mering C., Krause R., Snel B., Cornell M., Oliver S.G., Fields S., and Bork P. Comparative assessment of large-scale data sets of protein-protein interactions. Nature 417 6887 (2002) 399-402
    • (2002) Nature , vol.417 , Issue.6887 , pp. 399-402
    • von Mering, C.1    Krause, R.2    Snel, B.3    Cornell, M.4    Oliver, S.G.5    Fields, S.6    Bork, P.7
  • 29
    • 0032482432 scopus 로고    scopus 로고
    • Collective dynamics of small world networks
    • Watts D., and Strogatz S. Collective dynamics of small world networks. Nature 393 6684 (1998) 440-442
    • (1998) Nature , vol.393 , Issue.6684 , pp. 440-442
    • Watts, D.1    Strogatz, S.2
  • 30
    • 33645319955 scopus 로고    scopus 로고
    • Predicting interactions in protein networks by completing defective cliques
    • Yu H., Paccanaro A., Trifonov V., and Gerstein M. Predicting interactions in protein networks by completing defective cliques. Bioinformatics 22 7 (2006) 823-829
    • (2006) Bioinformatics , vol.22 , Issue.7 , pp. 823-829
    • Yu, H.1    Paccanaro, A.2    Trifonov, V.3    Gerstein, M.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.