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Volumn 28, Issue 14, 2012, Pages 1887-1894

Robustness and accuracy of functional modules in integrated network analysis

Author keywords

[No Author keywords available]

Indexed keywords

ACUTE LYMPHOBLASTIC LEUKEMIA; ALGORITHM; ARTICLE; BIOLOGY; COMPARATIVE STUDY; COMPUTER SIMULATION; DNA MICROARRAY; GENE EXPRESSION PROFILING; GENETICS; HIGH THROUGHPUT SEQUENCING; HUMAN; LARGE CELL LYMPHOMA; METHODOLOGY;

EID: 84864131140     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bts265     Document Type: Article
Times cited : (22)

References (31)
  • 1
    • 0034598746 scopus 로고    scopus 로고
    • Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
    • Alizadeh, A. A. et al. (2000) Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature, 403, 503-511.
    • (2000) Nature , vol.403 , pp. 503-511
    • Alizadeh, A.A.1
  • 2
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: tool for the unification of biology
    • Ashburner, M. et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
    • (2000) The Gene Ontology Consortium. Nat. Genet. , vol.25 , pp. 25-29
    • Ashburner, M.1
  • 3
    • 77951972600 scopus 로고    scopus 로고
    • Bionet: an R-package for the functional analysis of biological networks
    • Beisser, D. et al. (2010) Bionet: an R-package for the functional analysis of biological networks. Bioinformatics, 26, 1129-1130.
    • (2010) Bioinformatics , vol.26 , pp. 1129-1130
    • Beisser, D.1
  • 4
    • 80051997026 scopus 로고
    • Robust tests for the equality of variances
    • Brown, M. and Forsythe, A. B. (1974) Robust tests for the equality of variances. J. Am. Statis. Assoc., 69, 364-367.
    • (1974) J. Am. Statis. Assoc. , vol.69 , pp. 364-367
    • Brown, M.1    Forsythe, A.B.2
  • 5
    • 0030471795 scopus 로고    scopus 로고
    • The BCR-ABL tyrosine kinase inhibits apoptosis by activating a Ras-dependent signaling pathway
    • Cortez, D. et al. (1996) The BCR-ABL tyrosine kinase inhibits apoptosis by activating a Ras-dependent signaling pathway. Oncogene, 13, 2589-2594.
    • (1996) Oncogene , vol.13 , pp. 2589-2594
    • Cortez, D.1
  • 6
    • 0035905313 scopus 로고    scopus 로고
    • Constitutive nuclear factor kappaB activity is required for survival of activated B cell-like diffuse large B cell lymphoma cells
    • Davis, R. E. et al. (2001) Constitutive nuclear factor kappaB activity is required for survival of activated B cell-like diffuse large B cell lymphoma cells. J. Exp. Med., 194, 1861-1874.
    • (2001) J. Exp. Med. , vol.194 , pp. 1861-1874
    • Davis, R.E.1
  • 7
    • 73849145729 scopus 로고    scopus 로고
    • Chronic active b-cell-receptor signalling in diffuse large b-cell lymphoma
    • Davis, R. E. et al. (2010) Chronic active b-cell-receptor signalling in diffuse large b-cell lymphoma. Nature, 463, 88-92.
    • (2010) Nature , vol.463 , pp. 88-92
    • Davis, R.E.1
  • 8
    • 2442545671 scopus 로고    scopus 로고
    • Src kinases in Ph+ lymphoblastic leukemia
    • Deininger, M. (2004) Src kinases in Ph+ lymphoblastic leukemia. Nat. Genet., 36, 440-441.
    • (2004) Nat. Genet. , vol.36 , pp. 440-441
    • Deininger, M.1
  • 9
    • 46249128543 scopus 로고    scopus 로고
    • Identifying functional modules in protein-protein interaction networks: an integrated exact approach
    • Dittrich, M. T. et al. (2008) Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Bioinformatics, 24, i223-i231.
    • (2008) Bioinformatics , vol.24
    • Dittrich, M.T.1
  • 10
    • 0002344794 scopus 로고
    • Bootstrap methods: Another look at the jackknife
    • Efron, B. (1979) Bootstrap methods: Another look at the jackknife. Ann. Stat., 7, 1-26.
    • (1979) Ann. Stat. , vol.7 , pp. 1-26
    • Efron, B.1
  • 11
    • 33846689706 scopus 로고    scopus 로고
    • Using GOstats to test gene lists for GO term association
    • Falcon, S. and Gentleman, R. (2007) Using GOstats to test gene lists for GO term association. Bioinformatics, 23, 257-258.
    • (2007) Bioinformatics , vol.23 , pp. 257-258
    • Falcon, S.1    Gentleman, R.2
  • 12
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: an approach using the bootstrap
    • Felsenstein, J. (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39, 783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 13
    • 0003991673 scopus 로고    scopus 로고
    • Sinauer Associates, Sunderland, Massachusetts
    • Felsenstein, J. (2004) Inferring Phylogenies. Sinauer Associates, Sunderland, Massachusetts.
    • (2004) Inferring Phylogenies
    • Felsenstein, J.1
  • 14
    • 84862019471 scopus 로고    scopus 로고
    • Regulation of stat3 by histone deacetylase-3 in diffuse large b-cell lymphoma: implications for therapy
    • November 2011; doi:10.1038/leu. 2011. 340
    • Gupta, M. et al. (2011) Regulation of stat3 by histone deacetylase-3 in diffuse large b-cell lymphoma: implications for therapy. Leukemia, advance online publication, 25 November 2011; doi:10. 1038/leu. 2011. 340.
    • (2011) Leukemia, advance online publication , pp. 25
    • Gupta, M.1
  • 15
    • 77955134007 scopus 로고    scopus 로고
    • Clinical utility of microarray-based gene expression profiling in the diagnosis and subclassification of leukemia: report from the international microarray innovations in leukemia study group
    • Haferlach, T. et al. (2010) Clinical utility of microarray-based gene expression profiling in the diagnosis and subclassification of leukemia: report from the international microarray innovations in leukemia study group. J. Clin. Oncol., 28, 2529-2537.
    • (2010) J. Clin. Oncol. , vol.28 , pp. 2529-2537
    • Haferlach, T.1
  • 16
    • 0000801240 scopus 로고    scopus 로고
    • Discovering regulatory and signalling circuits in molecular interaction networks
    • Ideker, T. et al. (2002) Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics, 18 (Suppl. 1), S233-S240.
    • (2002) Bioinformatics , vol.18 , Issue.SUPPL. 1
    • Ideker, T.1
  • 17
    • 48749084082 scopus 로고    scopus 로고
    • An international standardization programme towards the application of gene expression profiling in routine leukaemia diagnostics: the microarray innovations in leukemia study prephase
    • Kohlmann, A. et al. (2008) An international standardization programme towards the application of gene expression profiling in routine leukaemia diagnostics: the microarray innovations in leukemia study prephase. Br. J. Haematol., 142, 802-807.
    • (2008) Br. J. Haematol. , vol.142 , pp. 802-807
    • Kohlmann, A.1
  • 18
    • 0003139708 scopus 로고
    • Robust tests for equality variances
    • Olkin, I. (ed.), Stanford Univ. Press., Palo Alto, CA
    • Levene, H. (1960) Robust tests for equality variances. In Olkin, I. (ed.) Contributions to Probability and Statistics. Stanford Univ. Press., Palo Alto, CA.
    • (1960) Contributions to Probability and Statistics
    • Levene, H.1
  • 19
    • 33644877439 scopus 로고    scopus 로고
    • Human protein reference database-2006 update
    • Mishra, G. R. et al. (2006) Human protein reference database-2006 update. Nucleic Acids Res, 34, D411-D414.
    • (2006) Nucleic Acids Res , vol.34
    • Mishra, G.R.1
  • 20
    • 0038156106 scopus 로고    scopus 로고
    • Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values
    • Pounds, S. and Morris, S. W. (2003) Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values. Bioinformatics, 19, 1236-1242.
    • (2003) Bioinformatics , vol.19 , pp. 1236-1242
    • Pounds, S.1    Morris, S.W.2
  • 21
    • 33947730844 scopus 로고    scopus 로고
    • Identifying functional modules in the physical interactome of saccharomyces cerevisiae
    • Pu, S. et al. (2007) Identifying functional modules in the physical interactome of saccharomyces cerevisiae. Proteomics, 7, 944-960.
    • (2007) Proteomics , vol.7 , pp. 944-960
    • Pu, S.1
  • 22
    • 0001610304 scopus 로고
    • Notes on bias in estimation
    • Quenouille, M. H. (1956) Notes on bias in estimation. Biometrika, 43, 353-360.
    • (1956) Biometrika , vol.43 , pp. 353-360
    • Quenouille, M.H.1
  • 23
    • 0037142053 scopus 로고    scopus 로고
    • The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma
    • Rosenwald, A. et al. (2002) The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma. N. Engl. J. Med., 346, 1937-1947.
    • (2002) N. Engl. J. Med. , vol.346 , pp. 1937-1947
    • Rosenwald, A.1
  • 24
    • 33645983211 scopus 로고    scopus 로고
    • Efficient algorithms for detecting signaling pathways in protein interaction networks
    • Scott, J. et al. (2006) Efficient algorithms for detecting signaling pathways in protein interaction networks. J. Comput. Biol., 13, 133-144.
    • (2006) J. Comput. Biol. , vol.13 , pp. 133-144
    • Scott, J.1
  • 25
    • 78651324347 scopus 로고    scopus 로고
    • The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored
    • Szklarczyk, D. et al. (2011) The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res., 39, D561-D568.
    • (2011) Nucleic Acids Res , vol.39
    • Szklarczyk, D.1
  • 26
    • 0037472637 scopus 로고    scopus 로고
    • BCR-ABL binds to IRS-1 and IRS-1 phosphorylation is inhibited by imatinib in K562 cells
    • Traina, F. et al. (2003) BCR-ABL binds to IRS-1 and IRS-1 phosphorylation is inhibited by imatinib in K562 cells. FEBS Lett, 535, 17-22.
    • (2003) FEBS Lett , vol.535 , pp. 17-22
    • Traina, F.1
  • 27
    • 0001617782 scopus 로고
    • Bias and confidence in not quite large sample
    • Tukey, J. (1958) Bias and confidence in not quite large sample. Ann. Math. Statist., 29, 614.
    • (1958) Ann. Math. Statist. , vol.29 , pp. 614
    • Tukey, J.1
  • 28
    • 34548742517 scopus 로고    scopus 로고
    • Identification of functional modules using network topology and high-throughput data
    • Ulitsky, I. and Shamir, R. (2007) Identification of functional modules using network topology and high-throughput data. BMC. Syst. Biol., 1, 8.
    • (2007) BMC. Syst. Biol. , vol.1 , pp. 8
    • Ulitsky, I.1    Shamir, R.2
  • 31
    • 58149271021 scopus 로고    scopus 로고
    • Integrated network analysis platform for protein-protein interactions
    • Wu, J. et al. (2009) Integrated network analysis platform for protein-protein interactions. Nat. Methods, 6, 75-77.
    • (2009) Nat. Methods , vol.6 , pp. 75-77
    • Wu, J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.