메뉴 건너뛰기




Volumn 8, Issue 6, 2013, Pages

Modelling Competing Endogenous RNA Networks

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA; MICRORNA;

EID: 84879486402     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0066609     Document Type: Article
Times cited : (114)

References (46)
  • 1
    • 77955167841 scopus 로고    scopus 로고
    • Signatures of RNA binding proteins globally coupled to effective microRNA target sites
    • Jacobsen A, Wen J, Marks DS, Krogh A, (2010) Signatures of RNA binding proteins globally coupled to effective microRNA target sites. Genome Research 20: 1010-1019.
    • (2010) Genome Research , vol.20 , pp. 1010-1019
    • Jacobsen, A.1    Wen, J.2    Marks, D.S.3    Krogh, A.4
  • 2
    • 79961170994 scopus 로고    scopus 로고
    • A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language?
    • Salmena L, Poliseno L, Tay Y, Kats L, Pandolfi P, (2011) A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language? Cell 146: 353-358.
    • (2011) Cell , vol.146 , pp. 353-358
    • Salmena, L.1    Poliseno, L.2    Tay, Y.3    Kats, L.4    Pandolfi, P.5
  • 3
    • 80054700538 scopus 로고    scopus 로고
    • Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs
    • Tay Y, Kats L, Salmena L, Weiss D, Tan S, et al. (2011) Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs. Cell 147: 344-357.
    • (2011) Cell , vol.147 , pp. 344-357
    • Tay, Y.1    Kats, L.2    Salmena, L.3    Weiss, D.4    Tan, S.5
  • 4
    • 84870038812 scopus 로고    scopus 로고
    • Argonaute divides its RNA guide into domains with distinct functions and RNA-binding properties
    • F F.J.C.,D Z.P
    • Wee LM, F FJC, Salomon WE, D ZP, (2012) Argonaute divides its RNA guide into domains with distinct functions and RNA-binding properties. Cell 151: 1055-1067.
    • (2012) Cell , vol.151 , pp. 1055-1067
    • Wee, L.M.1    Salomon, W.E.2
  • 5
  • 6
    • 77955902024 scopus 로고    scopus 로고
    • The widespread regulation of microrna biogenesis, function and decay
    • Krol J, Loedige I, Filipowicz W, (2010) The widespread regulation of microrna biogenesis, function and decay. Nature Reviews Genetics 11: 597-610.
    • (2010) Nature Reviews Genetics , vol.11 , pp. 597-610
    • Krol, J.1    Loedige, I.2    Filipowicz, W.3
  • 7
    • 67349123973 scopus 로고    scopus 로고
    • Redefining microRNA targets
    • Seitz H, (2009) Redefining microRNA targets. Current Biology 19: 870-873.
    • (2009) Current Biology , vol.19 , pp. 870-873
    • Seitz, H.1
  • 8
    • 80054681545 scopus 로고    scopus 로고
    • In vivo identification of tumor-suppressive PTEN ceRNAs in an oncogenic BRAF-induced mouse model of melanoma
    • Karreth F, Tay Y, Perna D, Ala U, Tan S, et al. (2011) In vivo identification of tumor-suppressive PTEN ceRNAs in an oncogenic BRAF-induced mouse model of melanoma. Cell 147: 382-395.
    • (2011) Cell , vol.147 , pp. 382-395
    • Karreth, F.1    Tay, Y.2    Perna, D.3    Ala, U.4    Tan, S.5
  • 9
    • 79955598536 scopus 로고    scopus 로고
    • Expression of CD44 3′-untranslated region regulates endogenous microRNA functions in tumorigenesis and angiogenesis
    • Jeyapalan Z, Deng Z, Shatseva T, Fang L, He C, et al. (2011) Expression of CD44 3′-untranslated region regulates endogenous microRNA functions in tumorigenesis and angiogenesis. Nucleic Acids Research 39: 3026-3041.
    • (2011) Nucleic Acids Research , vol.39 , pp. 3026-3041
    • Jeyapalan, Z.1    Deng, Z.2    Shatseva, T.3    Fang, L.4    He, C.5
  • 10
    • 80054689794 scopus 로고    scopus 로고
    • An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma
    • Sumazin P, Yang X, Chiu H, Chung W, Iyer A, et al. (2011) An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma. Cell 147: 370-381.
    • (2011) Cell , vol.147 , pp. 370-381
    • Sumazin, P.1    Yang, X.2    Chiu, H.3    Chung, W.4    Iyer, A.5
  • 11
    • 34548668642 scopus 로고    scopus 로고
    • Quantitative Characteristics of Gene Regulation by Small RNA
    • Levine E, Zhang Z, Kuhlman T, Hwa T, (2007) Quantitative Characteristics of Gene Regulation by Small RNA. PLoS Biol 5(9): e229.
    • (2007) PLoS Biol , vol.5 , Issue.9
    • Levine, E.1    Zhang, Z.2    Kuhlman, T.3    Hwa, T.4
  • 13
    • 12244269687 scopus 로고    scopus 로고
    • Near-critical phenomena in intracellular metabolite pools
    • Elf J, Paulsson J, Berg O, Ehrenberg M, (2003) Near-critical phenomena in intracellular metabolite pools. Biophysical Journal 84: 154-170.
    • (2003) Biophysical Journal , vol.84 , pp. 154-170
    • Elf, J.1    Paulsson, J.2    Berg, O.3    Ehrenberg, M.4
  • 14
    • 56949098506 scopus 로고    scopus 로고
    • Molecular titration and ultrasensitivity in regulatory networks
    • Buchler N, Louis M, (2008) Molecular titration and ultrasensitivity in regulatory networks. Journal of Molecular Biology 384: 1106-1119.
    • (2008) Journal of Molecular Biology , vol.384 , pp. 1106-1119
    • Buchler, N.1    Louis, M.2
  • 15
    • 56949096652 scopus 로고    scopus 로고
    • Small RNAs establish gene expression thresholds
    • Levine E, Hwa T, (2008) Small RNAs establish gene expression thresholds. Current Opinion in Microbiology 11: 574-579.
    • (2008) Current Opinion in Microbiology , vol.11 , pp. 574-579
    • Levine, E.1    Hwa, T.2
  • 16
    • 34748871477 scopus 로고    scopus 로고
    • Regulation of gene expression by small non-coding RNAs: a quantitative view
    • Shimoni Y, Friedlander G, Hetzroni G, Niv G, Altuvia S, et al. (2007) Regulation of gene expression by small non-coding RNAs: a quantitative view. Mol Syst Biol 3: 138.
    • (2007) Mol Syst Biol , vol.3 , pp. 138
    • Shimoni, Y.1    Friedlander, G.2    Hetzroni, G.3    Niv, G.4    Altuvia, S.5
  • 17
    • 80052266532 scopus 로고    scopus 로고
    • MicroRNAs can generate thresholds in target gene expression
    • Mukherji S, Ebert M, Zheng G, Tsang J, Sharp P, et al. (2011) MicroRNAs can generate thresholds in target gene expression. Nature Genetics 43: 854-859.
    • (2011) Nature Genetics , vol.43 , pp. 854-859
    • Mukherji, S.1    Ebert, M.2    Zheng, G.3    Tsang, J.4    Sharp, P.5
  • 18
    • 84876899530 scopus 로고    scopus 로고
    • Integrated transcriptional and competitive endogenous rna networks are cross-regulated in permissive molecular environments
    • doi:, doi10.1073/pnas.1222509110
    • Ala U, Karreth FA, Bosia C, Pagnani A, Taulli R, et al. (2013) Integrated transcriptional and competitive endogenous rna networks are cross-regulated in permissive molecular environments. Proceedings of the National Academy of Sciences: doi:10.1073/pnas.1222509110.
    • (2013) Proceedings of the National Academy of Sciences
    • Ala, U.1    Karreth, F.A.2    Bosia, C.3    Pagnani, A.4    Taulli, R.5
  • 19
    • 19544379881 scopus 로고    scopus 로고
    • Stochasticity in gene expression: from theories to phenotypes
    • Kaern M, Elston T, Blake W, Collins J, (2005) Stochasticity in gene expression: from theories to phenotypes. Nat Rev Genet 6(6): 451-464.
    • (2005) Nat Rev Genet , vol.6 , Issue.6 , pp. 451-464
    • Kaern, M.1    Elston, T.2    Blake, W.3    Collins, J.4
  • 20
    • 34347260600 scopus 로고    scopus 로고
    • Living with noisy genes: how cells function reliably with inherent variability in gene expression
    • Maheshri N, OShea E, (2007) Living with noisy genes: how cells function reliably with inherent variability in gene expression. Annu Rev Biophys Biomol Struct 36: 413-434.
    • (2007) Annu Rev Biophys Biomol Struct , vol.36 , pp. 413-434
    • Maheshri, N.1    OShea, E.2
  • 21
    • 53549123008 scopus 로고    scopus 로고
    • Nature, nurture, or chance: stochastic gene expression and its consequences
    • Raj A, van Oudenaarden A, (2008) Nature, nurture, or chance: stochastic gene expression and its consequences. Cell 135: 216-226.
    • (2008) Cell , vol.135 , pp. 216-226
    • Raj, A.1    van Oudenaarden, A.2
  • 22
    • 64249144494 scopus 로고    scopus 로고
    • A microRNA imparts robustness against environmental uctuation during development
    • Li X, Cassidy J, Reinke C, Fischboeck S, Carthew R, (2009) A microRNA imparts robustness against environmental uctuation during development. Cell 137(2): 273-282.
    • (2009) Cell , vol.137 , Issue.2 , pp. 273-282
    • Li, X.1    Cassidy, J.2    Reinke, C.3    Fischboeck, S.4    Carthew, R.5
  • 23
    • 77949875682 scopus 로고    scopus 로고
    • MicroRNA control of signal transduction
    • Inui M, Martello G, Piccolo S, (2010) MicroRNA control of signal transduction. Nat Rev Mol Cell Biol 11(4): 252-263.
    • (2010) Nat Rev Mol Cell Biol , vol.11 , Issue.4 , pp. 252-263
    • Inui, M.1    Martello, G.2    Piccolo, S.3
  • 24
    • 84860324470 scopus 로고    scopus 로고
    • Roles for MicroRNAs in Conferring Robustness to Biological Processes
    • Ebert M, Sharp P, (2012) Roles for MicroRNAs in Conferring Robustness to Biological Processes. Cell 149(3): 515-524.
    • (2012) Cell , vol.149 , Issue.3 , pp. 515-524
    • Ebert, M.1    Sharp, P.2
  • 25
    • 0037144546 scopus 로고    scopus 로고
    • A microRNA in a Multiple-Turnover RNAi Enzyme Complex
    • Hutvágner G, Zamore PD, (2002) A microRNA in a Multiple-Turnover RNAi Enzyme Complex. Science 297(5589): 2056-2060.
    • (2002) Science , vol.297 , Issue.5589 , pp. 2056-2060
    • Hutvágner, G.1    Zamore, P.D.2
  • 27
  • 28
    • 24644480213 scopus 로고    scopus 로고
    • Inhibition of translational initiation by Let-7 MicroRNA in human cells
    • Pillai R, Bhattacharyya S, Artus C, Zoller T, Cougot N, et al. (2005) Inhibition of translational initiation by Let-7 MicroRNA in human cells. Science 309 (5740): 1573-1576.
    • (2005) Science , vol.309 , Issue.5740 , pp. 1573-1576
    • Pillai, R.1    Bhattacharyya, S.2    Artus, C.3    Zoller, T.4    Cougot, N.5
  • 29
    • 77449131843 scopus 로고    scopus 로고
    • MicroRNA assassins: factors that regulate the disappearance of miR-NAs
    • Kai Z, Pasquinelli A, (2010) MicroRNA assassins: factors that regulate the disappearance of miR-NAs. Nature structural & molecular biology 17(1): 5-10.
    • (2010) Nature Structural & Molecular Biology , vol.17 , Issue.1 , pp. 5-10
    • Kai, Z.1    Pasquinelli, A.2
  • 30
    • 79952364512 scopus 로고    scopus 로고
    • Kinetic Analysis Reveals the Fate of a MicroRNA following Target Regulation in Mammalian Cells
    • Baccarini A, Chauhan H, Gardner TJ, Jayaprakash AD, Sachidanandam R, et al. (2011) Kinetic Analysis Reveals the Fate of a MicroRNA following Target Regulation in Mammalian Cells. Current Biology 21(5): 369-376.
    • (2011) Current Biology , vol.21 , Issue.5 , pp. 369-376
    • Baccarini, A.1    Chauhan, H.2    Gardner, T.J.3    Jayaprakash, A.D.4    Sachidanandam, R.5
  • 34
    • 79151474604 scopus 로고    scopus 로고
    • Theoretical Analysis of Catalytic-sRNA-Mediated Gene Silencing
    • Hao Y, Xu Y, Shi H, (2011) Theoretical Analysis of Catalytic-sRNA-Mediated Gene Silencing. Journal of Molecular Biology 406(1): 195-204.
    • (2011) Journal of Molecular Biology , vol.406 , Issue.1 , pp. 195-204
    • Hao, Y.1    Xu, Y.2    Shi, H.3
  • 36
    • 79953660228 scopus 로고    scopus 로고
    • Network motifs: simple building blocks of complex networks
    • Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, et al. (2002) Network motifs: simple building blocks of complex networks. Science 303: 1538-1542.
    • (2002) Science , vol.303 , pp. 1538-1542
    • Milo, R.1    Shen-Orr, S.2    Itzkovitz, S.3    Kashtan, N.4    Chklovskii, D.5
  • 37
    • 70349334678 scopus 로고    scopus 로고
    • Genome-wide survey of microRNA-transcription factor feed-forward regulatory circuits in human
    • Re A, Corá D, Taverna D, Caselle M, (2009) Genome-wide survey of microRNA-transcription factor feed-forward regulatory circuits in human. Mol BioSyst 5: 854-867.
    • (2009) Mol BioSyst , vol.5 , pp. 854-867
    • Re, A.1    Corá, D.2    Taverna, D.3    Caselle, M.4
  • 38
    • 34547555796 scopus 로고    scopus 로고
    • Global and local architecture of the mammalian microRNA-transcription factor regulatory network
    • Shalgi R, Lieber D, Oren M, Pilpel Y, (2007) Global and local architecture of the mammalian microRNA-transcription factor regulatory network. PLoS Comput Biol 3(7): e131.
    • (2007) PLoS Comput Biol , vol.3 , Issue.7
    • Shalgi, R.1    Lieber, D.2    Oren, M.3    Pilpel, Y.4
  • 39
    • 34249819336 scopus 로고    scopus 로고
    • MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals
    • Tsang J, Zhu J, van Oudenaarden A, (2007) MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals. Mol Cell 26: 753-767.
    • (2007) Mol Cell , vol.26 , pp. 753-767
    • Tsang, J.1    Zhu, J.2    van Oudenaarden, A.3
  • 40
    • 56649099271 scopus 로고    scopus 로고
    • Analysis of regulatory network topology reveals functionally distinct classes of micrornas
    • Yu X, Iin J, Zack D, Mendell J, Qian J, (2008) Analysis of regulatory network topology reveals functionally distinct classes of micrornas. Nucleic Acids Res 36: 6494-6503.
    • (2008) Nucleic Acids Res , vol.36 , pp. 6494-6503
    • Yu, X.1    Iin, J.2    Zack, D.3    Mendell, J.4    Qian, J.5
  • 41
    • 77957200347 scopus 로고    scopus 로고
    • A potential role for intragenic miRNAs on their hosts interactome
    • Hinske L, Galante P, Kuo W, Ohno-Machado L, (2010) A potential role for intragenic miRNAs on their hosts interactome. BMC Genomics 11: 533.
    • (2010) BMC Genomics , vol.11 , pp. 533
    • Hinske, L.1    Galante, P.2    Kuo, W.3    Ohno-Machado, L.4
  • 42
    • 77949267161 scopus 로고    scopus 로고
    • Isoform specific gene auto-regulation via miRNAs: a case study on miR-128b and ARPP-21
    • Megraw M, Sethupathy P, Gumireddy K, Jensen S, Huang Q, et al. (2009) Isoform specific gene auto-regulation via miRNAs: a case study on miR-128b and ARPP-21. Theor Chem Acc 125: 593-598.
    • (2009) Theor Chem Acc , vol.125 , pp. 593-598
    • Megraw, M.1    Sethupathy, P.2    Gumireddy, K.3    Jensen, S.4    Huang, Q.5
  • 43
    • 79952302623 scopus 로고    scopus 로고
    • The Role of Incoherent MicroRNA-Mediated Feed- forward Loops in Noise Buffering
    • Osella M, Bosia C, Corá D, Caselle M, (2011) The Role of Incoherent MicroRNA-Mediated Feed- forward Loops in Noise Buffering. PLoS Comput Biol 7: e1001101.
    • (2011) PLoS Comput Biol , vol.7
    • Osella, M.1    Bosia, C.2    Corá, D.3    Caselle, M.4
  • 45
    • 0017030517 scopus 로고
    • A general method for numerically simulating the stochastic time evolution of coupled chemical reactions
    • Gillespie DT, (1976) A general method for numerically simulating the stochastic time evolution of coupled chemical reactions. Journal of Computational Physics 22: 403-434.
    • (1976) Journal of Computational Physics , vol.22 , pp. 403-434
    • Gillespie, D.T.1
  • 46
    • 84874833554 scopus 로고    scopus 로고
    • Micrornas as a selective channel of communication between competing rnas: a steady-state theory
    • Figliuzzi M, Marinari E, Martino AD, (2013) Micrornas as a selective channel of communication between competing rnas: a steady-state theory. Biophysical Journal 104 (5): 1203-1213.
    • (2013) Biophysical Journal , vol.104 , Issue.5 , pp. 1203-1213
    • Figliuzzi, M.1    Marinari, E.2    Martino, A.D.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.