메뉴 건너뛰기




Volumn 108, Issue 2, 2013, Pages 450-460

Lack of correlation between predicted and actual off-target effects of short-interfering RNAs targeting the human papillomavirus type 16 E7 oncogene

Author keywords

E7; HPV16; Off target effects; siRNA; Sylamer

Indexed keywords

MESSENGER RNA; SMALL INTERFERING RNA;

EID: 84873569477     PISSN: 00070920     EISSN: 15321827     Source Type: Journal    
DOI: 10.1038/bjc.2012.564     Document Type: Article
Times cited : (15)

References (49)
  • 4
    • 58249088751 scopus 로고    scopus 로고
    • MicroRNAs: Target recognition and regulatory functions
    • Bartel DP (2009) MicroRNAs: Target recognition and regulatory functions. Cell 136(2): 215-233.
    • (2009) Cell , vol.136 , Issue.2 , pp. 215-233
    • Bartel, D.P.1
  • 5
    • 78149259605 scopus 로고    scopus 로고
    • SylArray: A web server for automated detection of miRNA effects from expression data
    • Bartonicek N, Enright AJ (2010) SylArray: A web server for automated detection of miRNA effects from expression data. Bioinformatics 26(22): 2900-2901.
    • (2010) Bioinformatics , vol.26 , Issue.22 , pp. 2900-2901
    • Bartonicek, N.1    Enright, A.J.2
  • 6
    • 0035829361 scopus 로고    scopus 로고
    • Controlling the false discovery rate in behavior genetics research
    • DOI 10.1016/S0166-4328(01)00297-2, PII S0166432801002972
    • Benjamini Y, Drai D, Elmer G, Kafkafi N, Golani I (2001) Controlling the false discovery rate in behavior genetics research. Behav Brain Res 125(1-2): 279-284. (Pubitemid 33000466)
    • (2001) Behavioural Brain Research , vol.125 , Issue.1-2 , pp. 279-284
    • Benjamini, Y.1    Drai, D.2    Elmer, G.3    Kafkafi, N.4    Golani, I.5
  • 9
    • 0028788194 scopus 로고
    • AU-rich elements: Characterization and importance in mRNA degradation
    • Chen CY, ShyüAB (1995) AU-rich elements: Characterization and importance in mRNA degradation. Trends Biochem Sci 20(11): 465-470.
    • (1995) Trends Biochem Sci , vol.20 , Issue.11 , pp. 465-470
    • Chen, C.Y.1    Shyü, A.B.2
  • 11
    • 34548561818 scopus 로고    scopus 로고
    • Beadarray: R classes and methods for Illumina bead-based data
    • DOI 10.1093/bioinformatics/btm311
    • Dunning MJ, Smith ML, Ritchie ME, Tavare S (2007) beadarray: R classes and methods for Illumina bead-based data. Bioinformatics 23(16): 2183-2184. (Pubitemid 47394121)
    • (2007) Bioinformatics , vol.23 , Issue.16 , pp. 2183-2184
    • Dunning, M.J.1    Smith, M.L.2    Ritchie, M.E.3    Tavare, S.4
  • 12
    • 33846689706 scopus 로고    scopus 로고
    • Using GOstats to test gene lists for GO term association
    • DOI 10.1093/bioinformatics/btl567
    • Falcon S, Gentleman R (2007) Using GOstats to test gene lists for GO term association. Bioinformatics 23(2): 257-258. (Pubitemid 46189622)
    • (2007) Bioinformatics , vol.23 , Issue.2 , pp. 257-258
    • Falcon, S.1    Gentleman, R.2
  • 14
    • 34250805982 scopus 로고    scopus 로고
    • MicroRNA Targeting Specificity in Mammals: Determinants beyond Seed Pairing
    • DOI 10.1016/j.molcel.2007.06.017, PII S1097276507004078
    • Grimson A, Farh KK, Johnston WK, Garrett-Engele P, Lim LP, Bartel DP (2007) MicroRNA targeting specificity in mammals: Determinants beyond seed pairing. Mol Cell 27(1): 91-105. (Pubitemid 46991392)
    • (2007) Molecular Cell , vol.27 , Issue.1 , pp. 91-105
    • Grimson, A.1    Farh, K.K.-H.2    Johnston, W.K.3    Garrett-Engele, P.4    Lim, L.P.5    Bartel, D.P.6
  • 15
    • 50849141708 scopus 로고    scopus 로고
    • MirWIP: MicroRNA target prediction based on microRNAcontaining ribonucleoprotein-enriched transcripts
    • Hammell M, Long D, Zhang L, Lee A, Carmack CS, Han M, Ding Y, Ambros V (2008) mirWIP: MicroRNA target prediction based on microRNAcontaining ribonucleoprotein-enriched transcripts. Nat Methods 5(9): 813-819.
    • (2008) Nat Methods , vol.5 , Issue.9 , pp. 813-819
    • Hammell, M.1    Long, D.2    Zhang, L.3    Lee, A.4    Carmack, C.S.5    Han, M.6    Ding, Y.7    Ambros, V.8
  • 16
    • 33750440566 scopus 로고    scopus 로고
    • Interferon-β treatment of cervical keratinocytes naturally infected with human papillomavirus 16 episomes promotes rapid reduction in episome numbers and emergence of latent integrants
    • DOI 10.1093/carcin/bgl172
    • Herdman MT, Pett MR, Roberts I, Alazawi WO, Teschendorff AE, Zhang XY, Stanley MA, Coleman N (2006) Interferon-beta treatment of cervical keratinocytes naturally infected with human papillomavirus 16 episomes promotes rapid reduction in episome numbers and emergence of latent integrants. Carcinogenesis 27(11): 2341-2353. (Pubitemid 44644825)
    • (2006) Carcinogenesis , vol.27 , Issue.11 , pp. 2341-2353
    • Herdman, T.M.1    Pett, M.R.2    Roberts, I.3    Alazawi, W.O.F.4    Teschendorff, A.E.5    Zhang, X.-Y.6    Stanley, M.A.7    Coleman, N.8
  • 18
    • 74049124186 scopus 로고    scopus 로고
    • Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application
    • Jackson AL, Linsley PS (2010) Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application. Nat Rev Drug Discov 9(1): 57-67.
    • (2010) Nat Rev Drug Discov , vol.9 , Issue.1 , pp. 57-67
    • Jackson, A.L.1    Linsley, P.S.2
  • 19
    • 0037026601 scopus 로고    scopus 로고
    • Selective silencing of viral gene expression in HPVpositive human cervical carcinoma cells treated with siRNA, a primer of RNA interference
    • Jiang M, Milner J (2002) Selective silencing of viral gene expression in HPVpositive human cervical carcinoma cells treated with siRNA, a primer of RNA interference. Oncogene 21(39): 6041-6048.
    • (2002) Oncogene , vol.21 , Issue.39 , pp. 6041-6048
    • Jiang, M.1    Milner, J.2
  • 20
    • 77956555156 scopus 로고    scopus 로고
    • MicroRNA-1 inhibits myocardin-induced contractility of human vascular smooth muscle cells
    • Jiang Y, Yin H, Zheng XL (2010) MicroRNA-1 inhibits myocardin-induced contractility of human vascular smooth muscle cells. J Cell Physiol 225(2): 506-511.
    • (2010) J Cell Physiol , vol.225 , Issue.2 , pp. 506-511
    • Jiang, Y.1    Yin, H.2    Zheng, X.L.3
  • 21
    • 39449097277 scopus 로고    scopus 로고
    • Overcoming the innate immune response to small interfering RNA
    • DOI 10.1089/hum.2007.179
    • Judge A, MacLachlan I (2008) Overcoming the innate immune response to small interfering RNA. Hum Gene Ther 19(2): 111-124. (Pubitemid 351271512)
    • (2008) Human Gene Therapy , vol.19 , Issue.2 , pp. 111-124
    • Judge, A.1    MacLachlan, I.2
  • 23
    • 11844278458 scopus 로고    scopus 로고
    • Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
    • DOI 10.1016/j.cell.2004.12.035, PII S0092867404012607
    • Lewis BP, Burge CB, Bartel DP (2005) Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120(1): 15-20. (Pubitemid 40094598)
    • (2005) Cell , vol.120 , Issue.1 , pp. 15-20
    • Lewis, B.P.1    Burge, C.B.2    Bartel, D.P.3
  • 25
    • 82355175140 scopus 로고    scopus 로고
    • Primary human cervical carcinoma cells require human papillomavirus E6 and E7 expression for ongoing proliferation
    • Magaldi TG, Almstead LL, Bellone S, Prevatt EG, Santin AD, DiMaio D (2012) Primary human cervical carcinoma cells require human papillomavirus E6 and E7 expression for ongoing proliferation. Virology 422(1): 114-124.
    • (2012) Virology , vol.422 , Issue.1 , pp. 114-124
    • Magaldi, T.G.1    Almstead, L.L.2    Bellone, S.3    Prevatt, E.G.4    Santin, A.D.5    DiMaio, D.6
  • 26
    • 78649775562 scopus 로고    scopus 로고
    • Enrichment map: A network-based method for gene-set enrichment visualization and interpretation
    • Merico D, Isserlin R, Stueker O, Emili A, Bader GD (2010) Enrichment map: A network-based method for gene-set enrichment visualization and interpretation. PLoS One 5(11): E13984.
    • (2010) PLoS One , vol.5 , Issue.11
    • Merico, D.1    Isserlin, R.2    Stueker, O.3    Emili, A.4    Bader, G.D.5
  • 28
    • 50149095122 scopus 로고    scopus 로고
    • Endogenous small interfering RNAs in animals
    • Okamura K, Lai EC (2008) Endogenous small interfering RNAs in animals. Nat Rev Mol Cell Biol 9(9): 673-678.
    • (2008) Nat Rev Mol Cell Biol , vol.9 , Issue.9 , pp. 673-678
    • Okamura, K.1    Lai, E.C.2
  • 29
    • 82055208159 scopus 로고    scopus 로고
    • Recent advances in understanding of the immunological off-target effects of siRNA
    • Olejniczak M, Polak K, Galka-Marciniak P, Krzyzosiak WJ (2011) Recent advances in understanding of the immunological off-target effects of siRNA. Curr Gene Ther 11(6): 532-543.
    • (2011) Curr Gene Ther , vol.11 , Issue.6 , pp. 532-543
    • Olejniczak, M.1    Polak, K.2    Galka-Marciniak, P.3    Krzyzosiak, W.J.4
  • 31
    • 0017641967 scopus 로고
    • Tumor antigen and human chorionic gonadotropin in CaSki cells: A new epidermoid cervical cancer cell line
    • Pattillo RA, Hussa RO, Story MT, Ruckert AC, Shalaby MR, Mattingly RF (1977) Tumor antigen and human chorionic gonadotropin in CaSki cells: A new epidermoid cervical cancer cell line. Science 196(4297): 1456-1458. (Pubitemid 8122337)
    • (1977) Science , vol.196 , Issue.4297 , pp. 1456-1458
    • Patillo, R.A.1    Hussa, R.O.2    Story, M.T.3
  • 32
    • 1242316161 scopus 로고    scopus 로고
    • Acquisition of high-level chromosomal instability is associated with integration of human papillomavirus type 16 in cervical keratinocytes
    • DOI 10.1158/0008-5472.CAN-03-3214
    • Pett MR, Alazawi WO, Roberts I, Dowen S, Smith DI, Stanley MA, Coleman N (2004) Acquisition of high-level chromosomal instability is associated with integration of human papillomavirus type 16 in cervical keratinocytes. Cancer Res 64(4): 1359-1368. (Pubitemid 38235604)
    • (2004) Cancer Research , vol.64 , Issue.4 , pp. 1359-1368
    • Pett, M.R.1    Alazawi, W.O.F.2    Roberts, I.3    Dowen, S.4    Smith, D.I.5    Stanley, M.A.6    Coleman, N.7
  • 34
    • 84857464812 scopus 로고    scopus 로고
    • Networks controlling mRNA decay in the immune system Wiley
    • Schott J, Stoecklin G (2010) Networks controlling mRNA decay in the immune system. Wiley Interdiscip Rev RNA 1(3): 432-456.
    • (2010) Interdiscip Rev RNA , vol.1 , Issue.3 , pp. 432-456
    • Schott, J.1    Stoecklin, G.2
  • 37
    • 77952955053 scopus 로고    scopus 로고
    • Recent advances in small interfering RNA sensing by the immune system
    • Sioud M (2010) Recent advances in small interfering RNA sensing by the immune system. N Biotechnol 27(3): 236-242.
    • (2010) N Biotechnol , vol.27 , Issue.3 , pp. 236-242
    • Sioud, M.1
  • 38
    • 0042552760 scopus 로고
    • Transcription of human papillomavirus type 16 early genes in a cervical cancer and a cancer-derived cell line and identification of the E7 protein
    • Smotkin D, Wettstein FO (1986) Transcription of human papillomavirus type 16 early genes in a cervical cancer and a cancer-derived cell line and identification of the E7 protein. Proc Natl Acad Sci USA 83(13): 4680-4684. (Pubitemid 16075465)
    • (1986) Proceedings of the National Academy of Sciences of the United States of America , vol.83 , Issue.13 , pp. 4680-4684
    • Smotkin, D.1    Wettstein, F.O.2
  • 39
    • 4544341015 scopus 로고    scopus 로고
    • Linear models and empirical bayes methods for assessing differential expression in microarray experiments
    • Article3
    • Smyth GK (2004) Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 3: Article3.
    • (2004) Stat Appl Genet Mol Biol , vol.3
    • Smyth, G.K.1
  • 41
    • 33645506348 scopus 로고    scopus 로고
    • Short-term induction and long-term suppression of HPV16 oncogene silencing by RNA interference in cervical cancer cells
    • Tang S, Tao M, McCoy Jr JP, Zheng ZM (2006) Short-term induction and long-term suppression of HPV16 oncogene silencing by RNA interference in cervical cancer cells. Oncogene 25(14): 2094-2104.
    • (2006) Oncogene , vol.25 , Issue.14 , pp. 2094-2104
    • Tang, S.1    Tao, M.2    McCoy Jr., J.P.3    Zheng, Z.M.4
  • 42
    • 42449091989 scopus 로고    scopus 로고
    • Functional dissection of siRNA sequence by systematic DNA substitution: Modified siRNA with a DNA seed arm is a powerful tool for mammalian gene silencing with significantly reduced off-target effect
    • DOI 10.1093/nar/gkn042
    • Ui-Tei K, Naito Y, Zenno S, Nishi K, Yamato K, Takahashi F, Juni A, Saigo K (2008) Functional dissection of siRNA sequence by systematic DNA substitution: Modified siRNA with a DNA seed arm is a powerful tool for mammalian gene silencing with significantly reduced off-target effect. Nucleic Acids Res 36(7): 2136-2151. (Pubitemid 351566989)
    • (2008) Nucleic Acids Research , vol.36 , Issue.7 , pp. 2136-2151
    • Ui-Tei, K.1    Naito, Y.2    Zenno, S.3    Nishi, K.4    Yamato, K.5    Takahashi, F.6    Juni, A.7    Saigo, K.8
  • 44
    • 57049175013 scopus 로고    scopus 로고
    • Detecting microRNA binding and siRNA off-target effects from expression data
    • van Dongen S, Abreu-Goodger C, Enright AJ (2008) Detecting microRNA binding and siRNA off-target effects from expression data. Nat Methods 5(12): 1023-1025.
    • (2008) Nat Methods , vol.5 , Issue.12 , pp. 1023-1025
    • Van Dongen, S.1    Abreu-Goodger, C.2    Enright, A.J.3
  • 46
    • 80054768317 scopus 로고    scopus 로고
    • Overexpression of the oncostatin M receptor in cervical squamous cell carcinoma cells is associated with a pro-angiogenic phenotype and increased cell motility and invasiveness
    • Winder DM, Chattopadhyay A, Muralidhar B, Bauer J, English WR, Zhang X, KaragavriilidoüK, Roberts I, Pett MR, Murphy G, Coleman N (2011) Overexpression of the oncostatin M receptor in cervical squamous cell carcinoma cells is associated with a pro-angiogenic phenotype and increased cell motility and invasiveness. J Pathol 225(3): 448-462.
    • (2011) J Pathol , vol.225 , Issue.3 , pp. 448-462
    • Winder, D.M.1    Chattopadhyay, A.2    Muralidhar, B.3    Bauer, J.4    English, W.R.5    Zhang, X.6    Karagavriilidoü, K.7    Roberts, I.8    Pett, M.R.9    Murphy, G.10    Coleman, N.11
  • 47
    • 15244358503 scopus 로고    scopus 로고
    • Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals
    • DOI 10.1038/nature03441
    • Xie X, LüJ, Kulbokas EJ, Golub TR, Mootha V, Lindblad-Toh K, Lander ES, Kellis M (2005) Systematic discovery of regulatory motifs in human promoters and 30 UTRs by comparison of several mammals. Nature 434(7031): 338-345. (Pubitemid 40469170)
    • (2005) Nature , vol.434 , Issue.7031 , pp. 338-345
    • Xie, X.1    Lu, J.2    Kulbokas, E.J.3    Golub, T.R.4    Mootha, V.5    Lindblad-Toh, K.6    Lander, E.S.7    Kellis, M.8


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.