메뉴 건너뛰기




Volumn 40, Issue 16, 2012, Pages 7653-7665

Prioritizing cancer-related key miRNA-target interactions by integrative genomics

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; MICRORNA 155;

EID: 84870478335     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks538     Document Type: Article
Times cited : (29)

References (70)
  • 1
    • 70349320158 scopus 로고    scopus 로고
    • Causes and consequences of microRNA dysregulation in cancer
    • Croce, C.M. (2009) Causes and consequences of microRNA dysregulation in cancer. Nat. Rev. Genet., 10, 704-714.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 704-714
    • Croce, C.M.1
  • 2
    • 83755205389 scopus 로고    scopus 로고
    • Prioritizing human cancer microRNAs based on genes' functional consistency between microRNA and cancer
    • Li, X., Wang, Q., Zheng, Y., Lv, S., Ning, S., Sun, J., Huang, T., Zheng, Q., Ren, H., Xu, J. et al. (2011) Prioritizing human cancer microRNAs based on genes' functional consistency between microRNA and cancer. Nucleic Acids Res., 39, e153.
    • (2011) Nucleic Acids Res. , vol.39
    • Li, X.1    Wang, Q.2    Zheng, Y.3    Lv, S.4    Ning, S.5    Sun, J.6    Huang, T.7    Zheng, Q.8    Ren, H.9    Xu, J.10
  • 3
    • 20544465679 scopus 로고    scopus 로고
    • MiRNAs: Whys and wherefores of miRNA-mediated regulation
    • Lai, E.C. (2005) miRNAs: whys and wherefores of miRNA-mediated regulation. Curr. Biol., 15, R458-R460.
    • (2005) Curr. Biol. , vol.15
    • Lai, E.C.1
  • 7
    • 76249119007 scopus 로고    scopus 로고
    • Opposing microRNA families regulate self-renewal in mouse embryonic stem cells
    • Melton, C., Judson, R.L. and Blelloch, R. (2010) Opposing microRNA families regulate self-renewal in mouse embryonic stem cells. Nature, 463, 621-626.
    • (2010) Nature , vol.463 , pp. 621-626
    • Melton, C.1    Judson, R.L.2    Blelloch, R.3
  • 9
    • 0027751663 scopus 로고
    • The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14
    • Lee, R.C., Feinbaum, R.L. and Ambros, V. (1993) The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell, 75, 843-854.
    • (1993) Cell , vol.75 , pp. 843-854
    • Lee, R.C.1    Feinbaum, R.L.2    Ambros, V.3
  • 10
    • 0027730383 scopus 로고
    • Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C
    • Wightman, B., Ha, I. and Ruvkun, G. (1993) Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. Elegans. Cell, 75, 855-862.
    • (1993) Elegans. Cell , vol.75 , pp. 855-862
    • Wightman, B.1    Ha, I.2    Ruvkun, G.3
  • 11
    • 4644309196 scopus 로고    scopus 로고
    • The functions of animal microRNAs
    • Ambros, V. (2004) The functions of animal microRNAs. Nature, 431, 350-355.
    • (2004) Nature , vol.431 , pp. 350-355
    • Ambros, V.1
  • 12
    • 58249088751 scopus 로고    scopus 로고
    • MicroRNAs: Target recognition and regulatory functions
    • Bartel, D.P. (2009) MicroRNAs: target recognition and regulatory functions. Cell, 136, 215-233.
    • (2009) Cell , vol.136 , pp. 215-233
    • Bartel, D.P.1
  • 13
    • 77954097757 scopus 로고    scopus 로고
    • Impact of probe annotation on the integration of miRNA-mRNA expression profiles for miRNA target detection
    • Sales, G., Coppe, A., Bicciato, S., Bortoluzzi, S. and Romualdi, C. (2010) Impact of probe annotation on the integration of miRNA-mRNA expression profiles for miRNA target detection. Nucleic Acids Res., 38(Suppl.), W352-W359.
    • (2010) Nucleic Acids Res. , vol.38 , Issue.SUPPL.
    • Sales, G.1    Coppe, A.2    Bicciato, S.3    Bortoluzzi, S.4    Romualdi, C.5
  • 14
    • 77955644289 scopus 로고    scopus 로고
    • Mammalian microRNAs predominantly act to decrease target mRNA levels
    • Guo, H., Ingolia, N.T., Weissman, J.S. and Bartel, D.P. (2010) Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature, 466, 835-840.
    • (2010) Nature , vol.466 , pp. 835-840
    • Guo, H.1    Ingolia, N.T.2    Weissman, J.S.3    Bartel, D.P.4
  • 15
    • 58149085504 scopus 로고    scopus 로고
    • MicroRNA control in the immune system: Basic principles
    • Xiao, C. and Rajewsky, K. (2009) MicroRNA control in the immune system: basic principles. Cell, 136, 26-36.
    • (2009) Cell , vol.136 , pp. 26-36
    • Xiao, C.1    Rajewsky, K.2
  • 17
    • 78651293534 scopus 로고    scopus 로고
    • MiRBase: Integrating microRNA annotation and deep-sequencing data
    • Kozomara, A. and Griffiths-Jones, S. (2011) miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res., 39, D152-D157.
    • (2011) Nucleic Acids Res. , vol.39
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 19
    • 60149095444 scopus 로고    scopus 로고
    • Most mammalian mRNAs are conserved targets of microRNAs
    • Friedman, R.C., Farh, K.K., Burge, C.B. and Bartel, D.P. (2009) Most mammalian mRNAs are conserved targets of microRNAs. Genome Res., 19, 92-105.
    • (2009) Genome Res. , vol.19 , pp. 92-105
    • Friedman, R.C.1    Farh, K.K.2    Burge, C.B.3    Bartel, D.P.4
  • 22
    • 78751623400 scopus 로고    scopus 로고
    • Tumour-initiating stem-like cells in human prostate cancer exhibit increased NF-kappaB signalling
    • Rajasekhar, V.K., Studer, L., Gerald, W., Socci, N.D. and Scher, H.I. (2011) Tumour-initiating stem-like cells in human prostate cancer exhibit increased NF-kappaB signalling. Nat. Commun., 2, 162.
    • (2011) Nat. Commun. , vol.2 , pp. 162
    • Rajasekhar, V.K.1    Studer, L.2    Gerald, W.3    Socci, N.D.4    Scher, H.I.5
  • 23
    • 54549108740 scopus 로고    scopus 로고
    • Comprehensive genomic characterization defines human glioblastoma genes and core pathways
    • Cancer Genome Atlas Research Network. (2008) Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature, 455, 1061-1068.
    • (2008) Nature , vol.455 , pp. 1061-1068
  • 24
    • 79959838081 scopus 로고    scopus 로고
    • Integrated genomic analyses of ovarian carcinoma
    • Cancer Genome Atlas Research Network
    • Cancer Genome Atlas Research Network. (2011) Integrated genomic analyses of ovarian carcinoma. Nature, 474, 609-615.
    • (2011) Nature , vol.474 , pp. 609-615
  • 27
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • Kanehisa, M. and Goto, S. (2000) KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res., 28, 27-30.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 29
    • 54849408182 scopus 로고    scopus 로고
    • An analysis of human microRNA and disease associations
    • Lu, M., Zhang, Q., Deng, M., Miao, J., Guo, Y., Gao, W. and Cui, Q. (2008) An analysis of human microRNA and disease associations. PLoS One, 3, e3420.
    • (2008) PLoS One , vol.3
    • Lu, M.1    Zhang, Q.2    Deng, M.3    Miao, J.4    Guo, Y.5    Gao, W.6    Cui, Q.7
  • 30
    • 78649778244 scopus 로고    scopus 로고
    • DbDEMC: A database of differentially expressed miRNAs in human cancers
    • Yang, Z., Ren, F., Liu, C., He, S., Sun, G., Gao, Q., Yao, L., Zhang, Y., Miao, R., Cao, Y. et al. (2010) dbDEMC: a database of differentially expressed miRNAs in human cancers. BMC Genom., 11(Suppl. 4), S5.
    • (2010) BMC Genom. , vol.11 , Issue.SUPPL. 4
    • Yang, Z.1    Ren, F.2    Liu, C.3    He, S.4    Sun, G.5    Gao, Q.6    Yao, L.7    Zhang, Y.8    Miao, R.9    Cao, Y.10
  • 31
    • 0035998736 scopus 로고    scopus 로고
    • Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders
    • Hamosh, A., Scott, A.F., Amberger, J., Bocchini, C., Valle, D. and McKusick, V.A. (2002) Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res., 30, 52-55.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 52-55
    • Hamosh, A.1    Scott, A.F.2    Amberger, J.3    Bocchini, C.4    Valle, D.5    McKusick, V.A.6
  • 36
    • 84863147229 scopus 로고    scopus 로고
    • Discovering dysfunction of multiple microRNAs cooperation in disease by a conserved microRNA co-expression network
    • Xiao, Y., Xu, C., Guan, J., Ping, Y., Fan, H., Li, Y., Zhao, H. and Li, X. (2012) Discovering dysfunction of multiple microRNAs cooperation in disease by a conserved microRNA co-expression network. PLoS One, 7, e32201.
    • (2012) PLoS One , vol.7
    • Xiao, Y.1    Xu, C.2    Guan, J.3    Ping, Y.4    Fan, H.5    Li, Y.6    Zhao, H.7    Li, X.8
  • 37
    • 33646884801 scopus 로고    scopus 로고
    • Reconstruction of a functional human gene network with an application for prioritizing positional candidate genes
    • Franke, L., van Bakel, H., Fokkens, L., de Jong, E.D., Egmont-Petersen, M. and Wijmenga, C. (2006) Reconstruction of a functional human gene network, with an application for prioritizing positional candidate genes. Am. J. Hum. Genet., 78, 1011-1025.
    • (2006) Am. J. Hum. Genet. , vol.78 , pp. 1011-1025
    • Franke, L.1    Van Bakel, H.2    Fokkens, L.3    De Jong, E.D.4    Egmont-Petersen, M.5    Wijmenga, C.6
  • 39
    • 18744376914 scopus 로고    scopus 로고
    • Online predicted human interaction database
    • Brown, K.R. and Jurisica, I. (2005) Online predicted human interaction database. Bioinformatics, 21, 2076-2082.
    • (2005) Bioinformatics , vol.21 , pp. 2076-2082
    • Brown, K.R.1    Jurisica, I.2
  • 40
    • 33645472191 scopus 로고    scopus 로고
    • Systematic identification of microRNA functions by combining target prediction and expression profiling
    • Wang, X. (2006) Systematic identification of microRNA functions by combining target prediction and expression profiling. Nucleic Acids Res., 34, 1646-1652.
    • (2006) Nucleic Acids Res. , vol.34 , pp. 1646-1652
    • Wang, X.1
  • 41
    • 0346727383 scopus 로고    scopus 로고
    • High expression of precursor microRNA-155/BIC RNA in children with Burkitt lymphoma
    • Metzler, M., Wilda, M., Busch, K., Viehmann, S. and Borkhardt, A. (2004) High expression of precursor microRNA-155/BIC RNA in children with Burkitt lymphoma. Genes Chromosomes Cancer, 39, 167-169.
    • (2004) Genes Chromosomes Cancer , vol.39 , pp. 167-169
    • Metzler, M.1    Wilda, M.2    Busch, K.3    Viehmann, S.4    Borkhardt, A.5
  • 45
    • 73449134501 scopus 로고    scopus 로고
    • Elevated expression of microRNAs 155 203, 210 and 222 in pancreatic tumors is associated with poorer survival
    • Greither, T., Grochola, L.F., Udelnow, A., Lautenschlager, C., Wurl, P. and Taubert, H. (2010) Elevated expression of microRNAs 155, 203, 210 and 222 in pancreatic tumors is associated with poorer survival. Int. J. Cancer, 126, 73-80.
    • (2010) Int. J. Cancer , vol.126 , pp. 73-80
    • Greither, T.1    Grochola, L.F.2    Udelnow, A.3    Lautenschlager, C.4    Wurl, P.5    Taubert, H.6
  • 47
  • 48
    • 77953308345 scopus 로고    scopus 로고
    • MicroRNA miR-155 inhibits bone morphogenetic protein (BMP) signaling and BMP-mediated Epstein-Barr virus reactivation
    • Yin, Q., Wang, X., Fewell, C., Cameron, J., Zhu, H., Baddoo, M., Lin, Z. and Flemington, E.K. (2010) MicroRNA miR-155 inhibits bone morphogenetic protein (BMP) signaling and BMP-mediated Epstein-Barr virus reactivation. J. Virol., 84, 6318-6327.
    • (2010) J. Virol. , vol.84 , pp. 6318-6327
    • Yin, Q.1    Wang, X.2    Fewell, C.3    Cameron, J.4    Zhu, H.5    Baddoo, M.6    Lin, Z.7    Flemington, E.K.8
  • 49
    • 70350759666 scopus 로고    scopus 로고
    • MicroRNA-155 regulates inflammatory cytokine production in tumor-associated macrophages via targeting C/EBPbeta
    • He, M., Xu, Z., Ding, T., Kuang, D.M. and Zheng, L. (2009) MicroRNA-155 regulates inflammatory cytokine production in tumor-associated macrophages via targeting C/EBPbeta. Cell. Mol. Immunol., 6, 343-352.
    • (2009) Cell. Mol. Immunol. , vol.6 , pp. 343-352
    • He, M.1    Xu, Z.2    Ding, T.3    Kuang, D.M.4    Zheng, L.5
  • 50
    • 67650227725 scopus 로고    scopus 로고
    • MicroRNA-155 modulates the pathogen binding ability of dendritic cells (DCs) by down-regulation of DC-specific intercellular adhesion molecule-3 grabbing non-integrin (DC-SIGN)
    • Martinez-Nunez, R.T., Louafi, F., Friedmann, P.S. and Sanchez-Elsner, T. (2009) MicroRNA-155 modulates the pathogen binding ability of dendritic cells (DCs) by down-regulation of DC-specific intercellular adhesion molecule-3 grabbing non-integrin (DC-SIGN). J. Biol. Chem., 284, 16334-16342.
    • (2009) J. Biol. Chem. , vol.284 , pp. 16334-16342
    • Martinez-Nunez, R.T.1    Louafi, F.2    Friedmann, P.S.3    Sanchez-Elsner, T.4
  • 52
    • 79961168650 scopus 로고    scopus 로고
    • MiR-155 promotes macroscopic tumor formation yet inhibits tumor dissemination from mammary fat pads to the lung by preventing EMT
    • Xiang, X., Zhuang, X., Ju, S., Zhang, S., Jiang, H., Mu, J., Zhang, L., Miller, D., Grizzle, W. and Zhang, H.G. (2011) miR-155 promotes macroscopic tumor formation yet inhibits tumor dissemination from mammary fat pads to the lung by preventing EMT. Oncogene, 30, 3440-3453.
    • (2011) Oncogene , vol.30 , pp. 3440-3453
    • Xiang, X.1    Zhuang, X.2    Ju, S.3    Zhang, S.4    Jiang, H.5    Mu, J.6    Zhang, L.7    Miller, D.8    Grizzle, W.9    Zhang, H.G.10
  • 55
    • 61449224546 scopus 로고    scopus 로고
    • Coherent but overlapping expression of microRNAs and their targets during vertebrate development
    • Shkumatava, A., Stark, A., Sive, H. and Bartel, D.P. (2009) Coherent but overlapping expression of microRNAs and their targets during vertebrate development. Genes Dev., 23, 466-481.
    • (2009) Genes Dev. , vol.23 , pp. 466-481
    • Shkumatava, A.1    Stark, A.2    Sive, H.3    Bartel, D.P.4
  • 56
    • 66049133419 scopus 로고    scopus 로고
    • Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells
    • Chekulaeva, M. and Filipowicz, W. (2009) Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells. Curr. Opin. Cell Biol., 21, 452-460.
    • (2009) Curr. Opin. Cell Biol. , vol.21 , pp. 452-460
    • Chekulaeva, M.1    Filipowicz, W.2
  • 57
    • 36749026906 scopus 로고    scopus 로고
    • Switching from repression to activation: MicroRNAs can up-regulate translation
    • Vasudevan, S., Tong, Y. and Steitz, J.A. (2007) Switching from repression to activation: microRNAs can up-regulate translation. Science, 318, 1931-1934.
    • (2007) Science , vol.318 , pp. 1931-1934
    • Vasudevan, S.1    Tong, Y.2    Steitz, J.A.3
  • 58
    • 24644483623 scopus 로고    scopus 로고
    • Modulation of hepatitis C virus RNA abundance by a liver-specific MicroRNA
    • Jopling, C.L., Yi, M., Lancaster, A.M., Lemon, S.M. and Sarnow, P. (2005) Modulation of hepatitis C virus RNA abundance by a liver-specific MicroRNA. Science, 309, 1577-1581.
    • (2005) Science , vol.309 , pp. 1577-1581
    • Jopling, C.L.1    Yi, M.2    Lancaster, A.M.3    Lemon, S.M.4    Sarnow, P.5
  • 62
    • 79959734421 scopus 로고    scopus 로고
    • Differential expression pattern-based prioritization of candidate genes through integrating disease-specific expression data
    • Xiao, Y., Xu, C., Ping, Y., Guan, J., Fan, H., Li, Y. and Li, X. (2011) Differential expression pattern-based prioritization of candidate genes through integrating disease-specific expression data. Genomics, 98, 64-71.
    • (2011) Genomics , vol.98 , pp. 64-71
    • Xiao, Y.1    Xu, C.2    Ping, Y.3    Guan, J.4    Fan, H.5    Li, Y.6    Li, X.7
  • 63
    • 36349010138 scopus 로고    scopus 로고
    • Protein interactions and disease: Computational approaches to uncover the etiology of diseases
    • Kann, M.G. (2007) Protein interactions and disease: computational approaches to uncover the etiology of diseases. Brief Bioinform., 8, 333-346.
    • (2007) Brief Bioinform. , vol.8 , pp. 333-346
    • Kann, M.G.1
  • 65
    • 77958569998 scopus 로고    scopus 로고
    • Human microRNA oncogenes and tumor suppressors show significantly different biological patterns: From functions to targets
    • Wang, D., Qiu, C., Zhang, H., Wang, J., Cui, Q. and Yin, Y. (2010) Human microRNA oncogenes and tumor suppressors show significantly different biological patterns: from functions to targets. PLoS One, 5, e13067.
    • (2010) PLoS One , vol.5
    • Wang, D.1    Qiu, C.2    Zhang, H.3    Wang, J.4    Cui, Q.5    Yin, Y.6
  • 66
    • 77955286897 scopus 로고    scopus 로고
    • TAM: A method for enrichment and depletion analysis of a microRNA category in a list of microRNAs
    • Lu, M., Shi, B., Wang, J., Cao, Q. and Cui, Q. (2010) TAM: a method for enrichment and depletion analysis of a microRNA category in a list of microRNAs. BMC Bioinformatics, 11, 419.
    • (2010) BMC Bioinformatics , vol.11 , pp. 419
    • Lu, M.1    Shi, B.2    Wang, J.3    Cao, Q.4    Cui, Q.5
  • 67
    • 44149083586 scopus 로고    scopus 로고
    • MiRDB: A microRNA target prediction and functional annotation database with a wiki interface
    • Wang, X. (2008) miRDB: a microRNA target prediction and functional annotation database with a wiki interface. RNA, 14, 1012-1017.
    • (2008) RNA , vol.14 , pp. 1012-1017
    • Wang, X.1
  • 68
    • 84860258459 scopus 로고    scopus 로고
    • Systematic identification of common functional modules related to heart failure with different etiologies
    • Xiao, Y., Xu, C., Xu, L., Guan, J., Ping, Y., Fan, H., Li, Y., Zhao, H. and Li, X. (2012) Systematic identification of common functional modules related to heart failure with different etiologies. Gene, 499, 332-338.
    • (2012) Gene , vol.499 , pp. 332-338
    • Xiao, Y.1    Xu, C.2    Xu, L.3    Guan, J.4    Ping, Y.5    Fan, H.6    Li, Y.7    Zhao, H.8    Li, X.9
  • 69
    • 77952918274 scopus 로고    scopus 로고
    • Genetic variation in microRNA networks: The implications for cancer research
    • Ryan, B.M., Robles, A.I. and Harris, C.C. (2010) Genetic variation in microRNA networks: the implications for cancer research. Nat. Rev. Cancer., 10, 389-402.
    • (2010) Nat. Rev. Cancer. , vol.10 , pp. 389-402
    • Ryan, B.M.1    Robles, A.I.2    Harris, C.C.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.