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Volumn 10, Issue 1, 2012, Pages

Ranking differential hubs in gene co-expression networks

Author keywords

centrality; co expression networks; connectivity; Differential analysis; differential hubs; differential networking; shortest paths

Indexed keywords

ALGORITHM; ARTICLE; BIOLOGY; DNA MICROARRAY; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENE REGULATORY NETWORK; METHODOLOGY;

EID: 84856882105     PISSN: 02197200     EISSN: None     Source Type: Journal    
DOI: 10.1142/S0219720012400021     Document Type: Article
Times cited : (23)

References (27)
  • 2
    • 77950840239 scopus 로고    scopus 로고
    • Subspace differential coexpression analysis: Problem definition and a general approach
    • Fang G, Kuang R, Pandey G et al, Subspace differential coexpression analysis: Problem definition and a general approach, Pac Symp Biocomput pp. 145-156, 2010.
    • (2010) Pac Symp Biocomput , pp. 145-156
    • Fang, G.1    Kuang, R.2    Pandey, G.3
  • 4
    • 77950544798 scopus 로고    scopus 로고
    • A statistical framework for differential network analysis from microarray data
    • Gill R, Datta S, Datta S, A statistical framework for differential network analysis from microarray data, BMC Bioinformatics 11:95, 2010.
    • (2010) BMC Bioinformatics , vol.11 , pp. 95
    • Gill, R.1    Datta, S.2    Datta, S.3
  • 5
    • 34548442971 scopus 로고    scopus 로고
    • Weighted gene coexpression network analysis strategies applied to mouse weight
    • DOI 10.1007/s00335-007-9043-3
    • Fuller TF, Ghazalpour A, Aten JE et al., Weighted gene coexpression network analysis strategies applied to mouse weight, Mamm Genome 18:463-472, 2007. (Pubitemid 47360423)
    • (2007) Mammalian Genome , vol.18 , Issue.6-7 , pp. 463-472
    • Fuller, T.F.1    Ghazalpour, A.2    Aten, J.E.3    Drake, T.A.4    Lusis, A.J.5    Horvath, S.6
  • 6
    • 60149089400 scopus 로고    scopus 로고
    • Differential dependency network analysis to identify condition-specific topological changes in biological networks
    • Zhang B, Li H, Riggins RB et al., Differential dependency network analysis to identify condition-specific topological changes in biological networks, Bioinformatics 25:526-532, 2009.
    • (2009) Bioinformatics , vol.25 , pp. 526-532
    • Zhang, B.1    Li, H.2    Riggins, R.B.3
  • 7
    • 77953913791 scopus 로고    scopus 로고
    • A from 'differential expression' to 'differential networking' identification of dysfunctional regulatory networks in diseases
    • de la Fuente A, From 'differential expression' to 'differential networking' identification of dysfunctional regulatory networks in diseases, Trends Genet 26:326-333, 2010.
    • (2010) Trends Genet , vol.26 , pp. 326-333
    • De La Fuente1
  • 9
    • 46249103142 scopus 로고    scopus 로고
    • Differential variability analysis of gene expression and its application to human diseases
    • DOI 10.1093/bioinformatics/btn142
    • Ho JW, Stefani M, dos Remedios CG et al, Differential variability analysis of gene expression and its application to human diseases, Bioinformatics 24:i390-398, 2008. (Pubitemid 351911695)
    • (2008) Bioinformatics , vol.24 , Issue.13
    • Ho, J.W.K.1    Stefani, M.2    Dos Remedios, C.G.3    Charleston, M.A.4
  • 10
    • 33846672214 scopus 로고    scopus 로고
    • Biological network comparison using graphlet degree distribution
    • DOI 10.1093/bioinformatics/btl301
    • Pržulj N, Biological network comparison using graphlet degree distribution, Bioinformatics 23:e177-e183, 2007. (Pubitemid 46189654)
    • (2007) Bioinformatics , vol.23 , Issue.2
    • Przulj, N.1
  • 11
    • 33749988857 scopus 로고    scopus 로고
    • Simultaneous identification of differential gene expression and connectivity in inflammation, adipogenesis and cancer
    • DOI 10.1093/bioinformatics/btl392
    • Reverter A, Ingham A, Lehnert SA et al, Simultaneous identification of differential gene expression and connectivity in inflammation, adipogenesis and cancer, Bioinformatics 22:2396-2404, 2006. (Pubitemid 44566969)
    • (2006) Bioinformatics , vol.22 , Issue.19 , pp. 2396-2404
    • Reverter, A.1    Ingham, A.2    Lehnert, S.A.3    Tan, S.-H.4    Wang, Y.5    Ratnakumar, A.6    Dalrymple, B.P.7
  • 12
    • 67049159812 scopus 로고    scopus 로고
    • A differential wiring analysis of expression data correctly identifies the gene containing the causal mutation
    • Hudson NJ, Reverter A, Dalrymple BP, A differential wiring analysis of expression data correctly identifies the gene containing the causal mutation, PLoS Comput Biol 5: e1000382, 2009.
    • (2009) PLoS Comput Biol , vol.5
    • Hudson, N.J.1    Reverter, A.2    Dalrymple, B.P.3
  • 13
    • 44649135292 scopus 로고    scopus 로고
    • Reconstructing networks of pathways via significance analysis of their intersections
    • Francesconi M, Remondini D, Neretti N et al, Reconstructing networks of pathways via significance analysis of their intersections, BMC Bioinformatics 9:S9, 2008.
    • (2008) BMC Bioinformatics , vol.9
    • Francesconi, M.1    Remondini, D.2    Neretti, N.3
  • 14
    • 84865730611 scopus 로고
    • A set of measures of centrality based on betweenness
    • Freeman LC, A set of measures of centrality based on betweenness, Sociometry 40:35-41, 1977.
    • (1977) Sociometry , vol.40 , pp. 35-41
    • Freeman, L.C.1
  • 15
    • 0041848443 scopus 로고    scopus 로고
    • Topic-Sensitive PageRank: A context-sensitive ranking algorithm for web search
    • Haveliwala TH, Topic-Sensitive PageRank: A context-sensitive ranking algorithm for web search, IEEE Trans Knowl Data Eng 15:784-796, 2003.
    • (2003) IEEE Trans Knowl Data Eng , vol.15 , pp. 784-796
    • Haveliwala, T.H.1
  • 20
    • 0038483826 scopus 로고    scopus 로고
    • Emergence of scaling in random networks
    • Barabasi AL, Albert R, Emergence of scaling in random networks, Science 286:509-512, 1999.
    • (1999) Science , vol.286 , pp. 509-512
    • Barabasi, A.L.1    Albert, R.2
  • 21
    • 33845475442 scopus 로고    scopus 로고
    • Automatic evaluation of information ordering: Kendall's Tau
    • DOI 10.1162/coli.2006.32.4.471
    • Lapata M, Automatic evaluation of information ordering: Kendall's Tau, Comput Linguistics 32:471-484, 2006. (Pubitemid 44916186)
    • (2006) Computational Linguistics , vol.32 , Issue.4 , pp. 471-484
    • Lapata, M.1
  • 22
    • 0033569406 scopus 로고    scopus 로고
    • Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring
    • Golub TR, Slonim DK, Tamayo P et al, Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring, Science 286:531-537, 1999.
    • (1999) Science , vol.286 , pp. 531-537
    • Golub, T.R.1    Slonim, D.K.2    Tamayo, P.3
  • 24
    • 69749086899 scopus 로고    scopus 로고
    • Identification of rare cancer driver mutations by network reconstruction
    • Torkamani A, Schork NJ, Identification of rare cancer driver mutations by network reconstruction, Genome Res 19:1570-1578, 2009.
    • (2009) Genome Res , vol.19 , pp. 1570-1578
    • Torkamani, A.1    Schork, N.J.2
  • 25
    • 77649168721 scopus 로고    scopus 로고
    • A general co-expression network-based approach to gene expression analysis: Comparison and applications
    • Ruan J, Dean AK, Zhang W, A general co-expression network-based approach to gene expression analysis: Comparison and applications, BMC Sys Biol 4:8, 2010.
    • (2010) BMC Sys Biol , vol.4 , pp. 8
    • Ruan, J.1    Dean, A.K.2    Zhang, W.3
  • 26
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
    • Huang da W, Sherman BT, Lempicki RA, Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources, Nat Protoc 4:44-57, 2009.
    • (2009) Nat Protoc , vol.4 , pp. 44-57
    • Huang Da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 27
    • 62849126285 scopus 로고    scopus 로고
    • Disease candidate gene identification and prioritization using protein interaction networks
    • Chen J, Aronow BJ, Jegga AG, Disease candidate gene identification and prioritization using protein interaction networks, BMC Bioinformatics 10:73, 2009.
    • (2009) BMC Bioinformatics , vol.10 , pp. 73
    • Chen, J.1    Aronow, B.J.2    Jegga, A.G.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.