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Volumn 34, Issue 13, 2018, Pages i484-i493

Corrigendum: Classifying tumors by supervised network propagation (Bioinformatics (2018) DOI: 10.1093/bioinformatics/bty247);Classifying tumors by supervised network propagation

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGY; BREAST TUMOR; CLASSIFICATION; FEMALE; GENETICS; GLIOBLASTOMA; HUMAN; METABOLISM; MUTATION; NEOPLASM; PROCEDURES; PROTEIN ANALYSIS; SIGNAL TRANSDUCTION; SOFTWARE; SUPERVISED MACHINE LEARNING;

EID: 85050790865     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bty1072     Document Type: Erratum
Times cited : (34)

References (60)
  • 1
    • 0036013593 scopus 로고    scopus 로고
    • Statistical mechanics of complex networks
    • Albert, R. and Barabási, A.-L. (2002) Statistical mechanics of complex networks. Rev. Mod. Phys., 74, 47-97.
    • (2002) Rev. Mod. Phys. , vol.74 , pp. 47-97
    • Albert, R.1    Barabási, A.-L.2
  • 2
    • 84922589272 scopus 로고    scopus 로고
    • A multiscale statistical mechanical framework integrates biophysical and genomic data to assemble cancer networks
    • AlQuraishi, M. et al. (2014) A multiscale statistical mechanical framework integrates biophysical and genomic data to assemble cancer networks. Nat. Genet., 46, 1363-1371.
    • (2014) Nat. Genet. , vol.46 , pp. 1363-1371
    • Alquraishi, M.1
  • 4
    • 84927715519 scopus 로고    scopus 로고
    • Patient-specific driver gene prediction and risk assessment through integrated network analysis of cancer omics profiles
    • Bertrand, D. et al. (2015) Patient-specific driver gene prediction and risk assessment through integrated network analysis of cancer omics profiles. Nucleic Acids Res., 43, e44.
    • (2015) Nucleic Acids Res. , vol.43 , pp. e44
    • Bertrand, D.1
  • 6
    • 77949539805 scopus 로고    scopus 로고
    • Influence of pharmacogenetics on response and toxicity in breast cancer patients treated with doxorubicin and cyclophosphamide
    • Bray, J. et al. (2010) Influence of pharmacogenetics on response and toxicity in breast cancer patients treated with doxorubicin and cyclophosphamide. Br. J. Cancer, 102, 1003-1009.
    • (2010) Br. J. Cancer , vol.102 , pp. 1003-1009
    • Bray, J.1
  • 7
    • 84885074034 scopus 로고    scopus 로고
    • The somatic genomic landscape of glioblastoma
    • Brennan, C.W. et al. (2013) The somatic genomic landscape of glioblastoma. Cell, 155, 462-477.
    • (2013) Cell , vol.155 , pp. 462-477
    • Brennan, C.W.1
  • 8
    • 84877028141 scopus 로고    scopus 로고
    • Comprehensive molecular portraits of human breast tumours
    • Cancer Genome Atlas Network
    • Cancer Genome Atlas Network (2012) Comprehensive molecular portraits of human breast tumours. Nature, 490, 61-70.
    • (2012) Nature , vol.490 , pp. 61-70
  • 9
    • 79959838081 scopus 로고    scopus 로고
    • Integrated genomic analyses of ovarian carcinoma
    • Cancer Genome Atlas Research Network (2011) Integrated genomic analyses of ovarian carcinoma. Nature, 474, 609-615.
    • (2011) Nature , vol.474 , pp. 609-615
  • 10
    • 78651332286 scopus 로고    scopus 로고
    • Pathway commons, a web resource for biological pathway data
    • Cerami, E.G. et al. (2011) Pathway commons, a web resource for biological pathway data. Nucleic Acids Res., 39, D685-D690.
    • (2011) Nucleic Acids Res. , vol.39 , pp. D685-D690
    • Cerami, E.G.1
  • 11
    • 84978062214 scopus 로고    scopus 로고
    • MUFFINN: Cancer gene discovery via network analysis of somatic mutation data
    • Cho, A. et al. (2016) MUFFINN: cancer gene discovery via network analysis of somatic mutation data. Genome Biol., 17, 129.
    • (2016) Genome Biol. , vol.17 , pp. 129
    • Cho, A.1
  • 12
    • 84943613527 scopus 로고    scopus 로고
    • Comprehensive molecular portraits of invasive lobular breast cancer
    • Ciriello, G. et al. (2015) Comprehensive molecular portraits of invasive lobular breast cancer. Cell, 163, 506-519.
    • (2015) Cell , vol.163 , pp. 506-519
    • Ciriello, G.1
  • 13
    • 84856535081 scopus 로고    scopus 로고
    • Mutual exclusivity analysis identifies oncogenic network modules
    • Ciriello, G. et al. (2012) Mutual exclusivity analysis identifies oncogenic network modules. Genome Res., 22, 398-406.
    • (2012) Genome Res. , vol.22 , pp. 398-406
    • Ciriello, G.1
  • 14
    • 85027491351 scopus 로고    scopus 로고
    • Network propagation: A universal amplifier of genetic associations
    • Cowen, L. et al. (2017) Network propagation: a universal amplifier of genetic associations. Nat. Rev. Genet., 18, 551-562.
    • (2017) Nat. Rev. Genet. , vol.18 , pp. 551-562
    • Cowen, L.1
  • 15
    • 84945938190 scopus 로고    scopus 로고
    • Unmasking determinants of specificity in the human kinome
    • Creixell, P. et al. (2015a) Unmasking determinants of specificity in the human kinome. Cell, 163, 187-201.
    • (2015) Cell , vol.163 , pp. 187-201
    • Creixell, P.1
  • 16
    • 84934268985 scopus 로고    scopus 로고
    • Pathway and network analysis of cancer genomes
    • Creixell, P. et al. (2015b) Pathway and network analysis of cancer genomes. Nat. Methods, 12, 615-621.
    • (2015) Nat. Methods , vol.12 , pp. 615-621
    • Creixell, P.1
  • 17
    • 84945921294 scopus 로고    scopus 로고
    • Kinome-wide decoding of network-attacking mutations rewiring cancer signaling
    • Creixell, P. et al. (2015c) Kinome-wide decoding of network-attacking mutations rewiring cancer signaling. Cell, 163, 202-217.
    • (2015) Cell , vol.163 , pp. 202-217
    • Creixell, P.1
  • 19
    • 84906890364 scopus 로고    scopus 로고
    • Detrimental effects of Notch1 signaling activated by cadmium in renal proximal tubular epithelial cells
    • Fujiki, K. et al. (2014) Detrimental effects of Notch1 signaling activated by cadmium in renal proximal tubular epithelial cells. Cell Death Dis., 5, e1378.
    • (2014) Cell Death Dis. , vol.5 , pp. e1378
    • Fujiki, K.1
  • 20
    • 1542515338 scopus 로고    scopus 로고
    • A census of human cancer genes
    • Futreal, P.A. et al. (2004) A census of human cancer genes. Nat. Rev. Cancer, 4, 177-183.
    • (2004) Nat. Rev. Cancer , vol.4 , pp. 177-183
    • Futreal, P.A.1
  • 21
    • 84946844130 scopus 로고    scopus 로고
    • Identifying robust communities and multi-community nodes by combining top-down and bottom-up approaches to clustering
    • Gaiteri, C. et al. (2015) Identifying robust communities and multi-community nodes by combining top-down and bottom-up approaches to clustering. Sci. Rep., 5, 16361.
    • (2015) Sci. Rep. , vol.5 , pp. 16361
    • Gaiteri, C.1
  • 22
    • 84865739425 scopus 로고    scopus 로고
    • Architecture of the human regulatory network derived from ENCODE data
    • Gerstein, M.B. et al. (2012) Architecture of the human regulatory network derived from ENCODE data. Nature, 489, 91-100.
    • (2012) Nature , vol.489 , pp. 91-100
    • Gerstein, M.B.1
  • 23
    • 84887084951 scopus 로고    scopus 로고
    • Network-based stratification of tumor mutations
    • Hofree, M. et al. (2013) Network-based stratification of tumor mutations. Nat. Methods, 10, 1108-1115.
    • (2013) Nat. Methods , vol.10 , pp. 1108-1115
    • Hofree, M.1
  • 24
    • 85040187966 scopus 로고    scopus 로고
    • NetSig: Network-based discovery from cancer genomes
    • Horn, H. et al. (2018) NetSig: network-based discovery from cancer genomes. Nat. Methods, 15, 61-66.
    • (2018) Nat. Methods , vol.15 , pp. 61-66
    • Horn, H.1
  • 25
    • 77951115122 scopus 로고    scopus 로고
    • International network of cancer genome projects
    • International Cancer Genome Consortium. et al
    • International Cancer Genome Consortium. et al. (2010) International network of cancer genome projects. Nature, 464, 993-998.
    • (2010) Nature , vol.464 , pp. 993-998
  • 26
    • 84979649916 scopus 로고    scopus 로고
    • A landscape of pharmacogenomic interactions in cancer
    • Iorio, F. et al. (2016) A landscape of pharmacogenomic interactions in cancer. Cell, 166, 740-754.
    • (2016) Cell , vol.166 , pp. 740-754
    • Iorio, F.1
  • 27
    • 33645219500 scopus 로고    scopus 로고
    • Primary and compensatory roles for RB family members at cell cycle gene promoters that are deacetylated and downregulated in doxorubicin-induced senescence of breast cancer cells
    • Jackson, J.G. and Pereira-Smith, O.M. (2006) Primary and compensatory roles for RB family members at cell cycle gene promoters that are deacetylated and downregulated in doxorubicin-induced senescence of breast cancer cells. Mol. Cell. Biol., 26, 2501-2510.
    • (2006) Mol. Cell. Biol. , vol.26 , pp. 2501-2510
    • Jackson, J.G.1    Pereira-Smith, O.M.2
  • 28
    • 84934915971 scopus 로고    scopus 로고
    • Network-based survival-associated module biomarker and its crosstalk with cell death genes in ovarian cancer
    • Jin, N. et al. (2015) Network-based survival-associated module biomarker and its crosstalk with cell death genes in ovarian cancer. Sci. Rep., 5, 11566.
    • (2015) Sci. Rep. , vol.5 , pp. 11566
    • Jin, N.1
  • 29
    • 84962106951 scopus 로고    scopus 로고
    • Understanding genotype-phenotype effects in cancer via network approaches
    • Kim, Y.-A. et al. (2016) Understanding genotype-phenotype effects in cancer via network approaches. PLoS Comput. Biol., 12, e1004747.
    • (2016) PLoS Comput. Biol. , vol.12 , pp. e1004747
    • Kim, Y.-A.1
  • 31
    • 84899704909 scopus 로고    scopus 로고
    • Molecular structure, function, and dynamics of clathrin-mediated membrane traffic
    • Kirchhausen, T. et al. (2014) Molecular structure, function, and dynamics of clathrin-mediated membrane traffic. Cold Spring Harb. Perspect. Biol., 6, a016725.
    • (2014) Cold Spring Harb. Perspect. Biol. , vol.6 , pp. a016725
    • Kirchhausen, T.1
  • 32
    • 84926157747 scopus 로고    scopus 로고
    • Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes
    • Leiserson, M.D.M. et al. (2015a) Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes. Nat. Genet., 47, 106-114.
    • (2015) Nat. Genet. , vol.47 , pp. 106-114
    • Leiserson, M.D.M.1
  • 33
    • 84938567345 scopus 로고    scopus 로고
    • CoMEt: A statistical approach to identify combinations of mutually exclusive alterations in cancer
    • Leiserson, M.D.M. et al. (2015b) CoMEt: a statistical approach to identify combinations of mutually exclusive alterations in cancer. Genome Biol., 16, 160.
    • (2015) Genome Biol. , vol.16 , pp. 160
    • Leiserson, M.D.M.1
  • 34
    • 73349106829 scopus 로고    scopus 로고
    • Gene expression-based classification and regulatory networks of pediatric acute lymphoblastic leukemia
    • Li, Z. et al. (2009) Gene expression-based classification and regulatory networks of pediatric acute lymphoblastic leukemia. Blood, 114, 4486-4493.
    • (2009) Blood , vol.114 , pp. 4486-4493
    • Li, Z.1
  • 35
    • 85013213267 scopus 로고    scopus 로고
    • The OncoPPi network of cancer-focused protein-protein interactions to inform biological insights and therapeutic strategies
    • Li, Z. et al. (2017) The OncoPPi network of cancer-focused protein-protein interactions to inform biological insights and therapeutic strategies. Nat. Commun., 8, 14356.
    • (2017) Nat. Commun. , vol.8 , pp. 14356
    • Li, Z.1
  • 36
    • 0029824890 scopus 로고    scopus 로고
    • Transcriptional activation of the human epidermal growth factor receptor promoter by human p53
    • Ludes-Meyers, J.H. et al. (1996) Transcriptional activation of the human epidermal growth factor receptor promoter by human p53. Mol. Cell. Biol., 16, 6009-6019.
    • (1996) Mol. Cell. Biol. , vol.16 , pp. 6009-6019
    • Ludes-Meyers, J.H.1
  • 37
    • 79953902594 scopus 로고    scopus 로고
    • Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors
    • Miller, C.A. et al. (2011) Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors. BMC Med. Genomics, 4, 34.
    • (2011) BMC Med. Genomics , vol.4 , pp. 34
    • Miller, C.A.1
  • 38
    • 14244265590 scopus 로고    scopus 로고
    • Epidemiology and etiology of gliomas
    • Ohgaki, H. and Kleihues, P. (2005) Epidemiology and etiology of gliomas. Acta Neuropathol., 109, 93-108.
    • (2005) Acta Neuropathol. , vol.109 , pp. 93-108
    • Ohgaki, H.1    Kleihues, P.2
  • 39
    • 62449131093 scopus 로고    scopus 로고
    • Supervised risk predictor of breast cancer based on intrinsic subtypes
    • Parker, J.S. et al. (2009) Supervised risk predictor of breast cancer based on intrinsic subtypes. J. Clin. Oncol., 27, 1160-1167.
    • (2009) J. Clin. Oncol. , vol.27 , pp. 1160-1167
    • Parker, J.S.1
  • 40
    • 77952718207 scopus 로고    scopus 로고
    • C/EBPd targets cyclin D1 for proteasome-mediated degradation via induction of CDC27/APC3 expression
    • Pawar, S.A. et al. (2010) C/EBPd targets cyclin D1 for proteasome-mediated degradation via induction of CDC27/APC3 expression. Proc. Natl. Acad. Sci. USA, 107, 9210-9215.
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , pp. 9210-9215
    • Pawar, S.A.1
  • 41
    • 19044366304 scopus 로고
    • The problem of the random walk
    • Pearson, K. (1905) The problem of the random walk. Nature, 72, 342.
    • (1905) Nature , vol.72 , pp. 342
    • Pearson, K.1
  • 42
    • 0034680102 scopus 로고    scopus 로고
    • Molecular portraits of human breast tumours
    • Perou, C.M. et al. (2000) Molecular portraits of human breast tumours. Nature, 406, 747-752.
    • (2000) Nature , vol.406 , pp. 747-752
    • Perou, C.M.1
  • 43
    • 85011591571 scopus 로고    scopus 로고
    • NDEx: A community resource for sharing and publishing of biological networks
    • Pillich, R.T. et al. (2017) NDEx: a community resource for sharing and publishing of biological networks. Methods Mol. Biol., 1558, 271-301.
    • (2017) Methods Mol. Biol. , vol.1558 , pp. 271-301
    • Pillich, R.T.1
  • 44
    • 78951482208 scopus 로고    scopus 로고
    • Deconstructing the molecular portraits of breast cancer
    • Prat, A. and Perou, C.M. (2011) Deconstructing the molecular portraits of breast cancer. Mol. Oncol., 5, 5-23.
    • (2011) Mol. Oncol. , vol.5 , pp. 5-23
    • Prat, A.1    Perou, C.M.2
  • 45
    • 85035003093 scopus 로고    scopus 로고
    • NDEx 2.0: A clearinghouse for research on cancer pathways
    • Pratt, D. et al. (2017) NDEx 2.0: a clearinghouse for research on cancer pathways. Cancer Res., 77, e58-e61.
    • (2017) Cancer Res. , vol.77 , pp. e58-e61
    • Pratt, D.1
  • 46
    • 84951102783 scopus 로고    scopus 로고
    • NDEx, the network data exchange
    • Pratt, D. et al. (2015) NDEx, the network data exchange. Cell Syst., 1, 302-305.
    • (2015) Cell Syst. , vol.1 , pp. 302-305
    • Pratt, D.1
  • 47
    • 0032845770 scopus 로고    scopus 로고
    • Protein kinase C-dependent mobilization of the alpha6beta4 integrin from hemidesmosomes and its association with actin-rich cell protrusions drive the chemotactic migration of carcinoma cells
    • Rabinovitz, I. et al. (1999) Protein kinase C-dependent mobilization of the alpha6beta4 integrin from hemidesmosomes and its association with actin-rich cell protrusions drive the chemotactic migration of carcinoma cells. J. Cell Biol., 146, 1147-1160.
    • (1999) J. Cell Biol. , vol.146 , pp. 1147-1160
    • Rabinovitz, I.1
  • 48
    • 84953283238 scopus 로고    scopus 로고
    • Network-based integration of disparate omic data to identify 'silent players' in cancer
    • Ruffalo, M. et al. (2015) Network-based integration of disparate omic data to identify 'silent players' in cancer. PLoS Comput. Biol., 11, e1004595.
    • (2015) PLoS Comput. Biol. , vol.11 , pp. e1004595
    • Ruffalo, M.1
  • 49
    • 1642576036 scopus 로고    scopus 로고
    • The anti-apoptotic effect of Notch-1 requires p56lck-dependent, Akt/PKB-mediated signaling in T cells
    • Sade, H. et al. (2004) The anti-apoptotic effect of Notch-1 requires p56lck-dependent, Akt/PKB-mediated signaling in T cells. J. Biol. Chem., 279, 2937-2944.
    • (2004) J. Biol. Chem. , vol.279 , pp. 2937-2944
    • Sade, H.1
  • 50
    • 0033524920 scopus 로고    scopus 로고
    • Regulation of the c-met proto-oncogene promoter by p53
    • Seol, D.W. et al. (1999) Regulation of the c-met proto-oncogene promoter by p53. J. Biol. Chem., 274, 3565-3572.
    • (1999) J. Biol. Chem. , vol.274 , pp. 3565-3572
    • Seol, D.W.1
  • 51
    • 0031456065 scopus 로고    scopus 로고
    • Activation of phosphoinositide 3-OH kinase by the a6b4 integrin promotes carcinoma invasion
    • Shaw, L.M. et al. (1997) Activation of phosphoinositide 3-OH kinase by the a6b4 integrin promotes carcinoma invasion. Cell, 91, 949-960.
    • (1997) Cell , vol.91 , pp. 949-960
    • Shaw, L.M.1
  • 52
    • 79953151104 scopus 로고    scopus 로고
    • Trp53 regulates Notch 4 signaling through Mdm2
    • Sun, Y. et al. (2011) Trp53 regulates Notch 4 signaling through Mdm2. J. Cell Sci., 124, 1067-1076.
    • (2011) J. Cell Sci. , vol.124 , pp. 1067-1076
    • Sun, Y.1
  • 53
    • 73649123907 scopus 로고    scopus 로고
    • Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1
    • Verhaak, R.G.W. et al. (2010) Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. Cancer Cell, 17, 98-110.
    • (2010) Cancer Cell , vol.17 , pp. 98-110
    • Verhaak, R.G.W.1
  • 54
    • 84875490185 scopus 로고    scopus 로고
    • Cancer genome landscapes
    • Vogelstein, B. et al. (2013) Cancer genome landscapes. Science, 339, 1546-1558.
    • (2013) Science , vol.339 , pp. 1546-1558
    • Vogelstein, B.1
  • 55
    • 84884994218 scopus 로고    scopus 로고
    • The cancer genome atlas pan-cancer analysis project
    • Weinstein, J.N. et al. (2013) The cancer genome atlas pan-cancer analysis project. Nat. Genet., 45, 1113-1120.
    • (2013) Nat. Genet. , vol.45 , pp. 1113-1120
    • Weinstein, J.N.1
  • 56
    • 85028169490 scopus 로고    scopus 로고
    • Pattern discovery in breast cancer specific protein interaction network
    • Wu, X. et al. (2009) Pattern discovery in breast cancer specific protein interaction network. Summit. Transl. Bioinform., 2009, 1-5.
    • (2009) Summit. Transl. Bioinform. , vol.2009 , pp. 1-5
    • Wu, X.1
  • 57
    • 34247869640 scopus 로고    scopus 로고
    • The recruitment of phosphatidylinositol 3-kinase to the E-cadherin-catenin complex at the plasma membrane is required for calcium-induced phospholipase C-c1 activation and human keratinocyte differentiation
    • Xie, Z. and Bikle, D.D. (2007) The recruitment of phosphatidylinositol 3-kinase to the E-cadherin-catenin complex at the plasma membrane is required for calcium-induced phospholipase C-c1 activation and human keratinocyte differentiation. J. Biol. Chem., 282, 8695-8703.
    • (2007) J. Biol. Chem. , vol.282 , pp. 8695-8703
    • Xie, Z.1    Bikle, D.D.2
  • 59
    • 0033637979 scopus 로고    scopus 로고
    • Pike. A nuclear gtpase that enhances PI3kinase activity and is regulated by protein 4.1N
    • Ye, K. et al. (2000) Pike. A nuclear gtpase that enhances PI3kinase activity and is regulated by protein 4.1N. Cell, 103, 919-930.
    • (2000) Cell , vol.103 , pp. 919-930
    • Ye, K.1
  • 60
    • 84881613268 scopus 로고    scopus 로고
    • Integrating genomic, epigenomic, and transcriptomic features reveals modular signatures underlying poor prognosis in ovarian cancer
    • Zhang, W. et al. (2013) Integrating genomic, epigenomic, and transcriptomic features reveals modular signatures underlying poor prognosis in ovarian cancer. Cell Rep., 4, 542-553.
    • (2013) Cell Rep. , vol.4 , pp. 542-553
    • Zhang, W.1


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