메뉴 건너뛰기




Volumn 31, Issue 8, 2013, Pages 720-725

Network link prediction by global silencing of indirect correlations

Author keywords

[No Author keywords available]

Indexed keywords

CORRELATION MEASURES; DISCRIMINATIVE POWER; DYNAMICAL CORRELATIONS; DYNAMICAL MECHANISMS; FUNDAMENTAL PROPERTIES; MATRIX TRANSFORMATION; PAIRWISE INTERACTION; REGULATORY INTERACTIONS;

EID: 84883812062     PISSN: 10870156     EISSN: 15461696     Source Type: Journal    
DOI: 10.1038/nbt.2601     Document Type: Article
Times cited : (249)

References (42)
  • 2
    • 41649119247 scopus 로고    scopus 로고
    • Protein networks in disease
    • Ideker, T. & Sharan, R. Protein networks in disease. Genome Res. 18, 644-652 (2008).
    • (2008) Genome Res , vol.18 , pp. 644-652
    • Ideker, T.1    Sharan, R.2
  • 3
    • 36349010138 scopus 로고    scopus 로고
    • Protein interactions and disease: Computational approaches to uncover the etiology of diseases
    • Kann, M.G. Protein interactions and disease: computational approaches to uncover the etiology of diseases. Brief. Bioinform. 8, 333-346 (2007).
    • (2007) Brief. Bioinform , vol.8 , pp. 333-346
    • Kann M., .G.1
  • 4
    • 27944493925 scopus 로고    scopus 로고
    • Scale-free networks in cell biology
    • Albert, R. Scale-free networks in cell biology. J. Cell Sci. 118, 4947-4957 (2005).
    • (2005) J. Cell Sci , vol.118 , pp. 4947-4957
    • Albert, R.1
  • 5
    • 0742305866 scopus 로고    scopus 로고
    • Network biology: Understanding the cell's functional organization
    • Barabási, A.-L. & Oltvai, Z.N. Network biology: understanding the cell's functional organization. Nat. Rev. Genet. 5, 101-113 (2004).
    • (2004) Nat. Rev. Genet , vol.5 , pp. 101-113
    • Barabási, A.-L.1    Oltvai, Z.N.2
  • 6
    • 79952674000 scopus 로고    scopus 로고
    • Interactome networks and human disease
    • Vidal, M., Cusick, M.E. & Barabási, A.-L. Interactome networks and human disease. Cell 144, 986-998 (2011).
    • (2011) Cell , vol.144 , pp. 986-998
    • Vidal, M.1    Cusick, M.E.2    Barabási, A.-L.3
  • 7
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual, J.F. et al. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437, 1173-1178 (2005).
    • (2005) Nature , vol.437 , pp. 1173-1178
    • Rual, J.F.1
  • 8
    • 53349117774 scopus 로고    scopus 로고
    • High-quality binary protein interaction map of the yeast interactome network
    • Yu, H. et al. High-quality binary protein interaction map of the yeast interactome network. Science 322, 104-110 (2008).
    • (2008) Science , vol.322 , pp. 104-110
    • Yu, H.1
  • 9
    • 58149242456 scopus 로고    scopus 로고
    • An experimentally derived confidence score for binary protein-protein interactions
    • Braun, P. et al. An experimentally derived confidence score for binary protein-protein interactions. Nat. Methods 6, 91-97 (2009).
    • (2009) Nat. Methods , vol.6 , pp. 91-97
    • Braun, P.1
  • 10
    • 33645453254 scopus 로고    scopus 로고
    • Global landscape of protein complexes in the yeast
    • Krogan, N.J. et al. Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440, 637-643 (2006).
    • (2006) Saccharomyces Cerevisiae. Nature , vol.440 , pp. 637-643
    • Krogan, N.J.1
  • 11
    • 75649111192 scopus 로고    scopus 로고
    • The genetic landscape of a cell
    • Costanzo, M. et al. The genetic landscape of a cell. Science 327, 425-431 (2010).
    • (2010) Science , vol.327 , pp. 425-431
    • Costanzo, M.1
  • 12
    • 42149116826 scopus 로고    scopus 로고
    • A map of human protein interactions derived from co-expression of human mRNAs and their orthologs
    • Ramani, A.K. et al. A map of human protein interactions derived from co-expression of human mRNAs and their orthologs. Mol. Syst. Biol. 4, 180-195 (2008
    • (2008) Mol. Syst. Biol , vol.4 , pp. 180-195
    • Ramani, A.K.1
  • 13
    • 70350234820 scopus 로고    scopus 로고
    • Quantifying the connectivity of a network: The network correlation function method
    • Barzel, B. & Biham, O. Quantifying the connectivity of a network: the network correlation function method. Phys. Rev. E 80, 046104 (2009).
    • (2009) Phys. Rev. e , vol.80 , pp. 046104
    • Barzel, B.1    Biham, O.2
  • 14
    • 0032441150 scopus 로고    scopus 로고
    • Cluster analysis and display of genome-wide expression patterns
    • Eisen, M.B. et al. Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 95, 14863-14868 (1998).
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 14863-14868
    • Eisen, M.B.1
  • 15
    • 0033655775 scopus 로고    scopus 로고
    • Mutual information relevance networks: Functional genomic clustering using pairwise entropy measurements
    • Butte, A.J. & Kohane, I.S. Mutual information relevance networks: functional genomic clustering using pairwise entropy measurements. Pac. Symp. Biocomput. 5, 415-426 (2000).
    • (2000) Pac. Symp. Biocomput , vol.5 , pp. 415-426
    • Butte, A.J.1    Kohane, I.S.2
  • 16
    • 33947305781 scopus 로고    scopus 로고
    • ARACNE: An algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context
    • Margolin, A.A. et al. ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC Bioinformatics 7, S7 (2006).
    • (2006) BMC Bioinformatics , vol.7
    • Margolin, A.A.1
  • 17
    • 44949262939 scopus 로고    scopus 로고
    • Uncovering interactions in the frequency domain
    • Guo, S. et al. Uncovering interactions in the frequency domain. PLoS Comput. Biol. 4, e1000087 (2008).
    • (2008) PLoS Comput. Biol , vol.4
    • Guo, S.1
  • 18
    • 33846400424 scopus 로고    scopus 로고
    • Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles
    • Faith, J.J. et al. Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles. PLoS Biol. 5, e8 (2007).
    • (2007) PLoS Biol , vol.5
    • Faith, J.J.1
  • 19
    • 84870305264 scopus 로고    scopus 로고
    • Wisdom of crowds for robust gene network inference
    • Marbach, D. et al. Wisdom of crowds for robust gene network inference. Nat. Methods 9, 796-804 (2012).
    • (2012) Nat. Methods , vol.9 , pp. 796-804
    • Marbach, D.1
  • 20
    • 35548985891 scopus 로고    scopus 로고
    • Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns
    • Lezon, T.R. et al. Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns. Proc. Natl. Acad. Sci. USA 103, 19033-19038 (2006).
    • (2006) Proc. Natl. Acad. Sci. USA , vol.103 , pp. 19033-19038
    • Lezon, T.R.1
  • 21
    • 35948931439 scopus 로고    scopus 로고
    • An arabidopsis gene network based on the graphical gaussian model
    • Ma, S. et al. An Arabidopsis gene network based on the graphical Gaussian model. Genome Res. 17, 1614-1625 (2007).
    • (2007) Genome Res , vol.17 , pp. 1614-1625
    • Ma, S.1
  • 22
    • 37349057456 scopus 로고    scopus 로고
    • Using matrix of thresholding partial correlation coefficients to infer regulatory network
    • Han, L. & Zhu, J. Using matrix of thresholding partial correlation coefficients to infer regulatory network. Biosystems 91, 158-165 (2008).
    • (2008) Biosystems , vol.91 , pp. 158-165
    • Han, L.1    Zhu, J.2
  • 23
    • 60849112260 scopus 로고    scopus 로고
    • Studying alternative splicing regulatory networks through partial correlation analysis
    • Chen, L. & Zheng, S. Studying alternative splicing regulatory networks through partial correlation analysis. Genome Biol. 10, R3 (2009).
    • (2009) Genome Biol , vol.10
    • Chen, L.1    Zheng, S.2
  • 24
    • 66549116888 scopus 로고    scopus 로고
    • Partial correlation estimation by joint sparse regression models
    • Peng, J. et al. Partial correlation estimation by joint sparse regression models. J. Am. Stat. Assoc. 104, 735-746 (2009).
    • (2009) J. Am. Stat. Assoc , vol.104 , pp. 735-746
    • Peng, J.1
  • 25
    • 79953756541 scopus 로고    scopus 로고
    • Directed Partial Correlation: Inferring large-scale gene regulatory network through induced topology disruptions
    • Yuan, Y. et al. Directed Partial Correlation: inferring large-scale gene regulatory network through induced topology disruptions. PLoS ONE 6, e16835 (2011).
    • (2011) PLoS ONE , vol.6
    • Yuan, Y.1
  • 26
    • 10944272139 scopus 로고    scopus 로고
    • Friends and neighbors on the web
    • Adamic, L.A. & Adar, E. Friends and neighbors on the web. Soc. Networks 25, 211-230 (2003).
    • (2003) Soc. Networks , vol.25 , pp. 211-230
    • Adamic, L.A.1    Adar, E.2
  • 28
    • 52649087274 scopus 로고    scopus 로고
    • Modeling and analysis of gene regulatory networks
    • Karlebach, G. & Shamir, R. Modeling and analysis of gene regulatory networks. Nat. Rev. Mol. Cell Biol. 9, 770-780 (2008).
    • (2008) Nat. Rev. Mol. Cell Biol , vol.9 , pp. 770-780
    • Karlebach, G.1    Shamir, R.2
  • 32
    • 0034721164 scopus 로고    scopus 로고
    • Error and attack tolerance of complex networks
    • Albert, R., Jeong, H. & Barabási, A.-L. Error and attack tolerance of complex networks. Nature 406, 378-382 (2000).
    • (2000) Nature , vol.406 , pp. 378-382
    • Albert, R.1    Jeong, H.2    Barabási, A.-L.3
  • 33
    • 0034323311 scopus 로고    scopus 로고
    • Resilience of the Internet to random breakdowns
    • Cohen, R., Erez, K., Ben-Avraham, D. & Havlin, S. Resilience of the Internet to random breakdowns. Phys. Rev. Lett. 85, 4626-4628 (2000).
    • (2000) Phys. Rev. Lett , vol.85 , pp. 4626-4628
    • Cohen, R.1    Erez, K.2    Ben-Avraham, D.3    Havlin, S.4
  • 34
    • 76649139266 scopus 로고    scopus 로고
    • The Evolution of Random Graphs - The Giant Component
    • 2nd ed. Cambridge University Press
    • Bollobás, B. The Evolution of Random Graphs - the Giant Component. in Random Graphs 2nd ed. (Cambridge University Press, 2001).
    • (2001) Random Graphs
    • Bollobás, B.1
  • 37
    • 58149305794 scopus 로고    scopus 로고
    • An empirical framework for binary interactome mapping
    • Venkatesan, K. et al. An empirical framework for binary interactome mapping. Nat. Methods 6, 83-90 (2009).
    • (2009) Nat. Methods , vol.6 , pp. 83-90
    • Venkatesan, K.1
  • 38
    • 3343018400 scopus 로고    scopus 로고
    • The ensemble approach to understand genetic regulatory networks
    • Kauffman, S. The ensemble approach to understand genetic regulatory networks. Physica A 340, 733-740 (2004).
    • (2004) Physica A , vol.340 , pp. 733-740
    • Kauffman, S.1
  • 39
    • 84869447010 scopus 로고    scopus 로고
    • Protein structure prediction from sequence variation
    • Marks, D.S., Hopf, T.A. & Sander, C. Protein structure prediction from sequence variation. Nat. Biotechnol. 30, 1072-1080 (2012).
    • (2012) Nat. Biotechnol , vol.30 , pp. 1072-1080
    • Marks, D.S.1    Hopf, T.A.2    Sander, C.3
  • 40
    • 0038483826 scopus 로고    scopus 로고
    • Emergence of scaling in random networks
    • Barabási, A.-L. & Albert, R. Emergence of scaling in random networks. Science 286, 509-512 (1999).
    • (1999) Science , vol.286 , pp. 509-512
    • Barabási, A.-L.1    Albert, R.2
  • 41
    • 0036013593 scopus 로고    scopus 로고
    • Statistical mechanics of complex networks
    • Albert, R. & Barabási, A.-L. Statistical mechanics of complex networks. Rev. Mod. Phys. 74, 47-97 (2002).
    • (2002) Rev. Mod. Phys , vol.74 , pp. 47-97
    • Albert, R.1    Barabási, A.-L.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.