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Volumn 29, Issue 12, 2013, Pages 1553-1561

Systematic tracking of dysregulated modules identifies novel genes in cancer

Author keywords

[No Author keywords available]

Indexed keywords

BRCA2 PROTEIN; SACCHAROMYCES CEREVISIAE PROTEIN;

EID: 84878889746     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btt191     Document Type: Article
Times cited : (60)

References (40)
  • 1
    • 60849121964 scopus 로고    scopus 로고
    • Combined gene expression analysis of whole-tissue and microdissected pancreatic ductal adenocarcinoma identifies gene specifically overexpressed in tumor epithelia
    • Badea, L. et al. (2008) Combined gene expression analysis of whole-tissue and microdissected pancreatic ductal adenocarcinoma identifies gene specifically overexpressed in tumor epithelia. Hepatogastroenterology, 55, 2015-2026.
    • (2008) Hepatogastroenterology , vol.55 , pp. 2015-2026
    • Badea, L.1
  • 2
    • 3843084078 scopus 로고    scopus 로고
    • The COSMIC (Catalogue of SomaticMutations in Cancer) database and website
    • Bamford, S. et al. (2004) The COSMIC (Catalogue of SomaticMutations in Cancer) database and website. Br. J. Cancer, 91, 355-358.
    • (2004) Br. J. Cancer , vol.91 , pp. 355-358
    • Bamford, S.1
  • 3
    • 77249119762 scopus 로고    scopus 로고
    • The landscape of somatic copy-number alteration across human cancers
    • Beroukhim, R. et al. (2010) The landscape of somatic copy-number alteration across human cancers. Nature, 463, 899-905.
    • (2010) Nature , vol.463 , pp. 899-905
    • Beroukhim, R.1
  • 4
    • 84869091997 scopus 로고    scopus 로고
    • Pancreatic cancer genomes reveal aberrations in axon guidance pathway genes
    • Biankin, A.V. et al. (2012) Pancreatic cancer genomes reveal aberrations in axon guidance pathway genes. Nature, 491, 399-405.
    • (2012) Nature , vol.491 , pp. 399-405
    • Biankin, A.V.1
  • 5
    • 84866161727 scopus 로고    scopus 로고
    • SOX2 gene regulates the transcriptional network of oncogenes and affects tumorigenesis of human lung cancer cells
    • Chen, S. et al. (2012) SOX2 gene regulates the transcriptional network of oncogenes and affects tumorigenesis of human lung cancer cells. PLoS One, 7, e36326.
    • (2012) PLoS One , vol.7
    • Chen, S.1
  • 6
    • 48549092620 scopus 로고    scopus 로고
    • Construction of a cancer-perturbed protein-protein interaction network for discovery of apoptosis drug targets
    • Chu, L.H. and Chen, B.S. (2008) Construction of a cancer-perturbed protein-protein interaction network for discovery of apoptosis drug targets. BMC Syst. Biol., 2, 56.
    • (2008) BMC Syst. Biol , vol.2 , pp. 56
    • Chu, L.H.1    Chen, B.S.2
  • 7
    • 0038005018 scopus 로고    scopus 로고
    • DAVID: Database for annotation, visualization, and integrated discovery
    • Dennis, G. et al. (2003) DAVID: database for annotation, visualization, and integrated discovery. Genome Biol., 4, R60.
    • (2003) Genome Biol , vol.4
    • Dennis, G.1
  • 8
    • 84865168370 scopus 로고    scopus 로고
    • Recent approaches to the prioritization of candidate disease genes Wiley Interdiscip Rev
    • Doncheva, N.T. et al. (2012) Recent approaches to the prioritization of candidate disease genes. Wiley Interdiscip Rev. Syst. Biol. Med., 4, 429-442.
    • (2012) Syst. Biol. Med , vol.4 , pp. 429-442
    • Doncheva, N.T.1
  • 9
    • 77957116043 scopus 로고    scopus 로고
    • Maximum growth and survival of estrogen receptor-alpha positive breast cancer cells requires the Sin3A transcriptional repressor
    • Ellison-Zeski, S. and Alarid, E.T. (2010) Maximum growth and survival of estrogen receptor-alpha positive breast cancer cells requires the Sin3A transcriptional repressor. Mol. Cancer, 9, 263.
    • (2010) Mol. Cancer , vol.9 , pp. 263
    • Ellison-Zeski, S.1    Alarid, E.T.2
  • 10
    • 0016943409 scopus 로고
    • An efficient implementation of Edmonds' algorithm for maximum matching on graphs
    • Gabow, H.N. (1976) An efficient implementation of Edmonds' algorithm for maximum matching on graphs. J. ACM, 23, 221-234.
    • (1976) J ACM , vol.23 , pp. 221-234
    • Gabow, H.N.1
  • 11
    • 80755166143 scopus 로고    scopus 로고
    • GeneRanker: An online system for predicting gene-disease associations for translational research. Summit on Translat
    • Gonzalez, G. et al. (2008) GeneRanker: an online system for predicting gene-disease associations for translational research. Summit on Translat. Bioinfoma., 1, 26-30.
    • (2008) Bioinfoma , vol.1 , pp. 26-30
    • Gonzalez, G.1
  • 12
    • 13444266370 scopus 로고    scopus 로고
    • Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders
    • Hamosh, A. et al. (2004) Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res., 33, D514-D517.
    • (2004) Nucleic Acids Res , vol.33
    • Hamosh, A.1
  • 13
    • 80054848955 scopus 로고    scopus 로고
    • TRIM proteins and cancer
    • Hatakeyama, S. (2011) TRIM proteins and cancer. Nat. Rev., 11, 792-804.
    • (2011) Nat. Rev , vol.11 , pp. 792-804
    • Hatakeyama, S.1
  • 14
    • 52149123619 scopus 로고    scopus 로고
    • Core signalling pathways in human pancreatic cancers revealed by global genomic analysis
    • Jones, S. et al. (2008) Core signalling pathways in human pancreatic cancers revealed by global genomic analysis. Science, 321, 1801-1806.
    • (2008) Science , vol.321 , pp. 1801-1806
    • Jones, S.1
  • 15
    • 79953645463 scopus 로고    scopus 로고
    • Identifying causal genes and dyregulated pathways in complex diseases
    • Kim, Y.A. et al. (2009) Identifying causal genes and dyregulated pathways in complex diseases. PLoS Comput. Biol., 7, e1001095.
    • (2009) PLoS Comput. Biol , vol.7
    • Kim, Y.A.1
  • 16
    • 33947095027 scopus 로고    scopus 로고
    • A human phenome-interactome network of protein complexes implicated in genetic disorders
    • Lage, K. et al. (2007) A human phenome-interactome network of protein complexes implicated in genetic disorders. Nat. Biotech., 25, 309-316.
    • (2007) Nat. Biotech , vol.25 , pp. 309-316
    • Lage, K.1
  • 17
    • 84862209073 scopus 로고    scopus 로고
    • Geneinteraction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases
    • Liu, Y. et al. (2012a) Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases. BMC Syst. Biol., 6, 65.
    • (2012) BMC Syst. Biol , vol.6 , pp. 65
    • Liu, Y.1
  • 18
    • 84861843896 scopus 로고    scopus 로고
    • Identifying dysregulated pathways in cancers from pathway interaction networks
    • Liu, K.Q. et al. (2012b) Identifying dysregulated pathways in cancers from pathway interaction networks. BMC Bioinformatics, 13, 126.
    • (2012) BMC Bioinformatics , vol.13 , pp. 126
    • Liu, K.Q.1
  • 19
    • 67650735594 scopus 로고    scopus 로고
    • Complex discovery from weighted PPI networks
    • Liu, G. et al. (2009) Complex discovery from weighted PPI networks. Bioinformatics, 25, 1891-1897.
    • (2009) Bioinformatics , vol.25 , pp. 1891-1897
    • Liu, G.1
  • 20
    • 84866888440 scopus 로고    scopus 로고
    • Enhancing the prioritization of disease-causing genes through tissue specific protein interaction networks
    • Magger, O. et al. (2012) Enhancing the prioritization of disease-causing genes through tissue specific protein interaction networks. PLoS Comput. Biol., 8, e1002690.
    • (2012) PLoS Comput. Biol , vol.8
    • Magger, O.1
  • 21
    • 41649116321 scopus 로고    scopus 로고
    • Nuclear receptor coactivator/coregulator NCoA6 (NRC) is a pleiotropic coregulator involved in transcription, cell survival, growth and development
    • Mahajan, M. and Samuels, H.H. (2008) Nuclear receptor coactivator/coregulator NCoA6 (NRC) is a pleiotropic coregulator involved in transcription, cell survival, growth and development. Nucl. Recept. Signal., 6, e002.
    • (2008) Nucl. Recept. Signal , vol.6
    • Mahajan, M.1    Samuels, H.H.2
  • 22
    • 79959873016 scopus 로고    scopus 로고
    • Correlation of somatic mutation and expression identifies genes important in human glioblastoma progression and survival
    • Masica, D.L. and Karchin, R. (2011) Correlation of somatic mutation and expression identifies genes important in human glioblastoma progression and survival. Cancer Res., 71, 4550.
    • (2011) Cancer Res , vol.71 , pp. 4550
    • Masica, D.L.1    Karchin, R.2
  • 23
    • 84865227709 scopus 로고    scopus 로고
    • Cancer vulnerabilities unveiled by genomic loss
    • Nijhawan, D. et al. (2012) Cancer vulnerabilities unveiled by genomic loss. Cell, 150, 842-854.
    • (2012) Cell , vol.150 , pp. 842-854
    • Nijhawan, D.1
  • 24
    • 84866849548 scopus 로고    scopus 로고
    • Comprehensive genomic analysis identifies SOX2 as a frequently amplified gene in small-cell lung cancer
    • Rudin, C.M. et al. (2012) Comprehensive genomic analysis identifies SOX2 as a frequently amplified gene in small-cell lung cancer. Nat. Genet., 44, 1111-1116.
    • (2012) Nat. Genet , vol.44 , pp. 1111-1116
    • Rudin, C.M.1
  • 25
    • 1842858905 scopus 로고    scopus 로고
    • GeneCards 2002: Towards a complete, object-oriented, human gene compendium
    • Safran, M. et al. (2002) GeneCards 2002: towards a complete, object-oriented, human gene compendium. Bioinformatics, 18, 1542-1543.
    • (2002) Bioinformatics , vol.18 , pp. 1542-1543
    • Safran, M.1
  • 26
    • 0035760903 scopus 로고    scopus 로고
    • The BCL11 gene family: Involvement of BCL11A in lymphoid malignancies
    • Satterwhite, E. et al. (2001) The BCL11 gene family: involvement of BCL11A in lymphoid malignancies. Blood, 98, 3413-3420.
    • (2001) Blood , vol.98 , pp. 3413-3420
    • Satterwhite, E.1
  • 27
    • 84855344327 scopus 로고    scopus 로고
    • Dissecting the expression of EEF1A1/2 genes in human prostate cancer cells: The potential of EEF1A2 as a hallmark for prostate transformation and progression
    • Scaggiante, B. et al. (2012) Dissecting the expression of EEF1A1/2 genes in human prostate cancer cells: the potential of EEF1A2 as a hallmark for prostate transformation and progression. Br. J. Cancer, 106, 166-173.
    • (2012) Br. J. Cancer , vol.106 , pp. 166-173
    • Scaggiante, B.1
  • 28
    • 84455174500 scopus 로고    scopus 로고
    • RHOXF2 (PEPP2) as a cancer-promoting gene by expression cloning
    • 2012
    • Shibata-Minoshima, F. et al. (2012) RHOXF2 (PEPP2) as a cancer-promoting gene by expression cloning. Int. J. Oncol., 40, 93-98.
    • Int. J. Oncol , vol.40 , pp. 93-98
    • Shibata-Minoshima, F.1
  • 29
    • 84874354420 scopus 로고    scopus 로고
    • A survey of computational methods for protein complex prediction from protein interaction networks
    • Srihari, S. and Leong, H.W. (2013) A survey of computational methods for protein complex prediction from protein interaction networks. J. Bioinform. Comput. Biol., 11, 1230002.
    • (2013) J. Bioinform. Comput. Biol , vol.11 , pp. 1230002
    • Srihari, S.1    Leong, H.W.2
  • 30
    • 78651328883 scopus 로고    scopus 로고
    • The BioGRID Interaction Database: 2011 update
    • Stark, C. et al. (2011) The BioGRID Interaction Database: 2011 update. Nucleic Acids Res., 39, D698-D704.
    • (2011) Nucleic Acids Res , vol.39
    • Stark, C.1
  • 31
    • 33749264452 scopus 로고    scopus 로고
    • The worst-case time complexity for generating all maximal cliques and computational experiments
    • Tomita, E. et al. (2006) The worst-case time complexity for generating all maximal cliques and computational experiments. Theor. Comput. Sci., 363, 28-42.
    • (2006) Theor. Comput. Sci , vol.363 , pp. 28-42
    • Tomita, E.1
  • 32
    • 48449097800 scopus 로고    scopus 로고
    • ENDEAVOUR update: A web resource for gene prioritization in multiple species
    • Tranchevent, L.C. et al. (2008) ENDEAVOUR update: a web resource for gene prioritization in multiple species. Nucleic Acids Res., 36, W377-W384.
    • (2008) Nucleic Acids Res , vol.36
    • Tranchevent, L.C.1
  • 33
    • 79952118064 scopus 로고    scopus 로고
    • Subtypes of familial breast tumours revealed by expression and copy number profiling
    • Waddell, N. et al. (2010) Subtypes of familial breast tumours revealed by expression and copy number profiling. Breast Cancer Res. Treat., 123, 661-677.
    • (2010) Breast Cancer Res. Treat , vol.123 , pp. 661-677
    • Waddell, N.1
  • 34
    • 84863677563 scopus 로고    scopus 로고
    • Google goes cancer: Improving outcome prediction for cancer patients by network-based ranking of marker genes
    • Winter, C. et al. (2012) Google goes cancer: improving outcome prediction for cancer patients by network-based ranking of marker genes. PLoS Comput. Biol., 8, e1002511.
    • (2012) PLoS Comput. Biol , vol.8
    • Winter, C.1
  • 35
    • 36248962105 scopus 로고    scopus 로고
    • The genomic landscapes of human breast and colorectal cancers
    • Wood, L.D. et al. (2007) The genomic landscapes of human breast and colorectal cancers. Science, 318, 1108-1113.
    • (2007) Science , vol.318 , pp. 1108-1113
    • Wood, L.D.1
  • 36
    • 34247468876 scopus 로고    scopus 로고
    • Regulation of the actin cytoskeleton in cancer cell migration and invasion
    • Yamaguchi, H. and Condeelis, J. (2007) Regulation of the actin cytoskeleton in cancer cell migration and invasion. Biochim. Biophys. Acta., 1773, 642-652.
    • (2007) Biochim. Biophys. Acta , vol.1773 , pp. 642-652
    • Yamaguchi, H.1    Condeelis, J.2
  • 37
    • 84860138332 scopus 로고    scopus 로고
    • Enhanced RAD21 cohesin expression confers poor prognosis in BRCA2 and BRCAX, but not BRCA1 familial breast cancers
    • Yan, M. et al. (2012) Enhanced RAD21 cohesin expression confers poor prognosis in BRCA2 and BRCAX, but not BRCA1 familial breast cancers. Breast Cancer Res., 14, R69.
    • (2012) Breast Cancer Res , vol.14
    • Yan, M.1
  • 38
    • 84866065824 scopus 로고    scopus 로고
    • Weighted frequent gene co-expression network mining to identify genes involved in genome stability
    • Zhang, J. et al. (2012) Weighted frequent gene co-expression network mining to identify genes involved in genome stability. PLoS Comput. Biol., 8, e1002656.
    • (2012) PLoS Comput. Biol , vol.8
    • Zhang, J.1
  • 39
    • 84868152524 scopus 로고    scopus 로고
    • Discovery of multi-dimensional modules by integrative analysis of cancer genomic data
    • Zhang, S. et al. (2012) Discovery of multi-dimensional modules by integrative analysis of cancer genomic data. Nucleic Acids Res., 40, 9379-9391.
    • (2012) Nucleic Acids Res , vol.40 , pp. 9379-9391
    • Zhang, S.1
  • 40
    • 84869447682 scopus 로고    scopus 로고
    • Efficient methods for identifying mutated driver pathways in cancer
    • Zhao, J. et al. (2012) Efficient methods for identifying mutated driver pathways in cancer. Bioinformatics, 28, 2940-2947
    • (2012) Bioinformatics , vol.28 , pp. 2940-2947
    • Zhao, J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.