메뉴 건너뛰기




Volumn 16, Issue 1, 2015, Pages

Integrated microRNA, mRNA, and protein expression profiling reveals microRNA regulatory networks in rat kidney treated with a carcinogenic dose of aristolochic acid

Author keywords

Aristolochic acid; Carcinogenesis; Deep Sequencing; Kidney tumor; microRNA; Proteomics; Rat; RNA array; Target prediction

Indexed keywords

ARISTOLOCHIC ACID; MESSENGER RNA; MICRORNA; ARISTOLOCHIC ACID I; CARCINOGEN; RNA;

EID: 84930647574     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/s12864-015-1516-2     Document Type: Article
Times cited : (26)

References (52)
  • 1
    • 0036797622 scopus 로고    scopus 로고
    • Determination of aristolochic acid I and II in North American species of Asarum and Aristolochia
    • Schaneberg BT, Applequist WL, Khan IA. Determination of aristolochic acid I and II in North American species of Asarum and Aristolochia. Pharmazie. 2002;57:686-9.
    • (2002) Pharmazie , vol.57 , pp. 686-689
    • Schaneberg, B.T.1    Applequist, W.L.2    Khan, I.A.3
  • 2
    • 0036020624 scopus 로고    scopus 로고
    • Aristolochic acid as a probable human cancer hazard in herbal remedies: a review
    • Arlt VM, Stiborova M, Schmeiser HH. Aristolochic acid as a probable human cancer hazard in herbal remedies: a review. Mutagenesis. 2002;17:265-77.
    • (2002) Mutagenesis , vol.17 , pp. 265-277
    • Arlt, V.M.1    Stiborova, M.2    Schmeiser, H.H.3
  • 3
    • 63549124370 scopus 로고    scopus 로고
    • p53 mutations as fingerprints for aristolochic acid: an environmental carcinogen in endemic (Balkan) nephropathy
    • Slade N, Moll UM, Brdar B, Zoric A, Jelakovic B. p53 mutations as fingerprints for aristolochic acid: an environmental carcinogen in endemic (Balkan) nephropathy. Mutat Res. 2009;663:1-6.
    • (2009) Mutat Res , vol.663 , pp. 1-6
    • Slade, N.1    Moll, U.M.2    Brdar, B.3    Zoric, A.4    Jelakovic, B.5
  • 4
    • 84862997298 scopus 로고    scopus 로고
    • Acute renal failure due to an aristolochic acid containing herbal remedy
    • Hutton H, Dowling J, Kerr P. Acute renal failure due to an aristolochic acid containing herbal remedy. Nephrology (Carlton). 2012;17:522-3.
    • (2012) Nephrology (Carlton) , vol.17 , pp. 522-523
    • Hutton, H.1    Dowling, J.2    Kerr, P.3
  • 6
    • 33750629354 scopus 로고    scopus 로고
    • DNA adduct formation and mutation induction by aristolochic acid in rat kidney and liver
    • Mei N, Arlt VM, Phillips DH, Heflich RH, Chen T. DNA adduct formation and mutation induction by aristolochic acid in rat kidney and liver. Mutat Res. 2006;602:83-91.
    • (2006) Mutat Res , vol.602 , pp. 83-91
    • Mei, N.1    Arlt, V.M.2    Phillips, D.H.3    Heflich, R.H.4    Chen, T.5
  • 7
    • 0038343499 scopus 로고    scopus 로고
    • MicroRNA pathways in flies and worms: growth, death, fat, stress, and timing
    • Ambros V. MicroRNA pathways in flies and worms: growth, death, fat, stress, and timing. Cell. 2003;113:673-6.
    • (2003) Cell , vol.113 , pp. 673-676
    • Ambros, V.1
  • 8
    • 0347444723 scopus 로고    scopus 로고
    • MicroRNAs: genomics, biogenesis, mechanism, and function
    • Bartel DP. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell. 2004;116:281-97.
    • (2004) Cell , vol.116 , pp. 281-297
    • Bartel, D.P.1
  • 10
    • 0242361521 scopus 로고    scopus 로고
    • Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes
    • Aukerman MJ, Sakai H. Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes. Plant Cell. 2003;15:2730-41.
    • (2003) Plant Cell , vol.15 , pp. 2730-2741
    • Aukerman, M.J.1    Sakai, H.2
  • 11
    • 0347357618 scopus 로고    scopus 로고
    • A microRNA controlling left/right neuronal asymmetry in Caenorhabditis elegans
    • Johnston RJ, Hobert O. A microRNA controlling left/right neuronal asymmetry in Caenorhabditis elegans. Nature. 2003;426:845-9.
    • (2003) Nature , vol.426 , pp. 845-849
    • Johnston, R.J.1    Hobert, O.2
  • 13
    • 33750370444 scopus 로고    scopus 로고
    • MicroRNA signatures in human cancers
    • Calin GA, Croce CM. MicroRNA signatures in human cancers. Nat Rev Cancer. 2006;6:857-66.
    • (2006) Nat Rev Cancer , vol.6 , pp. 857-866
    • Calin, G.A.1    Croce, C.M.2
  • 18
    • 69249232047 scopus 로고    scopus 로고
    • A highly annotated whole-genome sequence of a Korean individual
    • Kim JI, Ju YS, Park H, Kim S, Lee S, Yi JH, et al. A highly annotated whole-genome sequence of a Korean individual. Nature. 2009;460(7258):1011-5.
    • (2009) Nature , vol.460 , Issue.7258 , pp. 1011-1015
    • Kim, J.I.1    Ju, Y.S.2    Park, H.3    Kim, S.4    Lee, S.5    Yi, J.H.6
  • 19
    • 70249089090 scopus 로고    scopus 로고
    • Single-molecule sequencing of an individual human genome
    • Pushkarev D, Neff NF, Quake SR. Single-molecule sequencing of an individual human genome. Nature Biotechnology. 2009;27(9):847-50.
    • (2009) Nature Biotechnology , vol.27 , Issue.9 , pp. 847-850
    • Pushkarev, D.1    Neff, N.F.2    Quake, S.R.3
  • 20
    • 42249087308 scopus 로고    scopus 로고
    • The complete genome of an individual by massively parallel DNA sequencing
    • Wheeler DA, Srinivasan M, Egholm M, Shen Y, Chen L, McGuire A, et al. The complete genome of an individual by massively parallel DNA sequencing. Nature. 2008;452(7189):872-6.
    • (2008) Nature , vol.452 , Issue.7189 , pp. 872-876
    • Wheeler, D.A.1    Srinivasan, M.2    Egholm, M.3    Shen, Y.4    Chen, L.5    McGuire, A.6
  • 21
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: a revolutionary tool for transcriptomics
    • Wang Z, Gerstein M, Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nature Reviews Genetics. 2009;10(1):57-63.
    • (2009) Nature Reviews Genetics , vol.10 , Issue.1 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 22
    • 81055124249 scopus 로고    scopus 로고
    • Pharmacoproteomics and toxicoproteomics: the field of dreams
    • Yu LR. Pharmacoproteomics and toxicoproteomics: the field of dreams. J Proteomics. 2011;74(12):2549-53.
    • (2011) J Proteomics , vol.74 , Issue.12 , pp. 2549-2553
    • Yu, L.R.1
  • 23
    • 1942435249 scopus 로고    scopus 로고
    • Micromanagers of gene expression: the potentially widespread influence of metazoan microRNAs
    • Bartel DP, Chen CZ. Micromanagers of gene expression: the potentially widespread influence of metazoan microRNAs. Nat Rev Genet. 2004;5:396-400.
    • (2004) Nat Rev Genet , vol.5 , pp. 396-400
    • Bartel, D.P.1    Chen, C.Z.2
  • 24
    • 84873997538 scopus 로고    scopus 로고
    • Proteomics for understanding miRNA biology
    • Huang TC, Pinto SM, Pandey A. Proteomics for understanding miRNA biology. Proteomics. 2013;13:558-67.
    • (2013) Proteomics , vol.13 , pp. 558-567
    • Huang, T.C.1    Pinto, S.M.2    Pandey, A.3
  • 25
    • 84870577216 scopus 로고    scopus 로고
    • Quantitative proteomic strategies for the identification of microRNA targets
    • Li C, Xiong Q, Zhang J, Ge F, Bi LJ. Quantitative proteomic strategies for the identification of microRNA targets. Expert Rev Proteomics. 2012;9:549-59.
    • (2012) Expert Rev Proteomics , vol.9 , pp. 549-559
    • Li, C.1    Xiong, Q.2    Zhang, J.3    Ge, F.4    Bi, L.J.5
  • 26
    • 36749026906 scopus 로고    scopus 로고
    • Switching from repression to activation: microRNAs can up-regulate translation
    • Vasudevan S, Tong Y, Steitz JA. Switching from repression to activation: microRNAs can up-regulate translation. Science. 2007;318:1931-4.
    • (2007) Science , vol.318 , pp. 1931-1934
    • Vasudevan, S.1    Tong, Y.2    Steitz, J.A.3
  • 27
    • 78651266827 scopus 로고    scopus 로고
    • miRTarBase: a database curates experimentally validated microRNA-target interactions
    • Hsu SD, Lin FM, Wu WY, Liang C, Huang WC, Chan WL, et al. miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Res. 2011;39:D163-9.
    • (2011) Nucleic Acids Res , vol.39 , pp. D163-D169
    • Hsu, S.D.1    Lin, F.M.2    Wu, W.Y.3    Liang, C.4    Huang, W.C.5    Chan, W.L.6
  • 28
    • 84928649426 scopus 로고    scopus 로고
    • Integrating microRNA target predictions for the discovery of gene regulatory networks: a semi-supervised ensemble learning approach
    • Pio G, Malerba D, D'Elia D, Ceci M. Integrating microRNA target predictions for the discovery of gene regulatory networks: a semi-supervised ensemble learning approach. BMC Bioinformatics. 2014;15(1):S4.
    • (2014) BMC Bioinformatics , vol.15 , Issue.1 , pp. S4
    • Pio, G.1    Malerba, D.2    D'Elia, D.3    Ceci, M.4
  • 30
    • 67849114241 scopus 로고    scopus 로고
    • miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments
    • Hackenberg M, Sturm M, Langenberger D, Falcon-Perez JM, Aransay AM. miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res 2009;37(Web Server issue):W68-76.
    • (2009) Nucleic Acids Res , vol.37 , Issue.WEB SERVER ISSUE , pp. W68-76
    • Hackenberg, M.1    Sturm, M.2    Langenberger, D.3    Falcon-Perez, J.M.4    Aransay, A.M.5
  • 31
    • 84891796290 scopus 로고    scopus 로고
    • miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions
    • Hsu SD, Tseng YT, Shrestha S, Lin YL, Khaleel A, Chou CH, et al. miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions. Nucleic Acids Res. 2014;42:D78-85.
    • (2014) Nucleic Acids Res , vol.42 , pp. D78-85
    • Hsu, S.D.1    Tseng, Y.T.2    Shrestha, S.3    Lin, Y.L.4    Khaleel, A.5    Chou, C.H.6
  • 32
    • 84887098573 scopus 로고    scopus 로고
    • Screening biomarkers of prostate cancer by integrating microRNA and mRNA microarrays
    • Feng J, Huang C, Diao X, Fan M, Wang P, Xiao Y, et al. Screening biomarkers of prostate cancer by integrating microRNA and mRNA microarrays. Genet Test Mol Biomarkers. 2013;17:807-13.
    • (2013) Genet Test Mol Biomarkers , vol.17 , pp. 807-813
    • Feng, J.1    Huang, C.2    Diao, X.3    Fan, M.4    Wang, P.5    Xiao, Y.6
  • 33
    • 84930666529 scopus 로고    scopus 로고
    • Proteomic analysis of aristolochic-acid induced nephrotoxicity in rats
    • Yu L, Li Z, Gao Y, Chen T. Proteomic analysis of aristolochic-acid induced nephrotoxicity in rats. Cancer Res. 2011;71:8. supplement 1AM2011-LB-2438.
    • (2011) Cancer Res , vol.71 , pp. 8
    • Yu, L.1    Li, Z.2    Gao, Y.3    Chen, T.4
  • 35
    • 33745742180 scopus 로고    scopus 로고
    • Mutations induced by carcinogenic doses of aristolochic acid in kidney of Big Blue transgenic rats
    • Chen L, Mei N, Yao L, Chen T. Mutations induced by carcinogenic doses of aristolochic acid in kidney of Big Blue transgenic rats. Toxicol Lett. 2006;165:250-6.
    • (2006) Toxicol Lett , vol.165 , pp. 250-256
    • Chen, L.1    Mei, N.2    Yao, L.3    Chen, T.4
  • 36
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders S, Huber W. Differential expression analysis for sequence count data. Genome Biol. 2010;11:R106.
    • (2010) Genome Biol , vol.11 , pp. R106
    • Anders, S.1    Huber, W.2
  • 38
    • 65749109370 scopus 로고    scopus 로고
    • Down-regulation of the microRNAs miR-34a, miR-127, and miR-200b in rat liver during hepatocarcinogenesis induced by a methyl-deficient diet
    • Tryndyak VP, Ross SA, Beland FA, Pogribny IP. Down-regulation of the microRNAs miR-34a, miR-127, and miR-200b in rat liver during hepatocarcinogenesis induced by a methyl-deficient diet. Mol Carcinog. 2009;48:479-87.
    • (2009) Mol Carcinog , vol.48 , pp. 479-487
    • Tryndyak, V.P.1    Ross, S.A.2    Beland, F.A.3    Pogribny, I.P.4
  • 39
    • 84874502379 scopus 로고    scopus 로고
    • Tumor-suppressive microRNA-135a inhibits cancer cell proliferation by targeting the c-MYC oncogene in renal cell carcinoma
    • Yamada Y, Hidaka H, Seki N, Yoshino H, Yamasaki T, Itesako T, et al. Tumor-suppressive microRNA-135a inhibits cancer cell proliferation by targeting the c-MYC oncogene in renal cell carcinoma. Cancer Sci. 2013;104:304-12.
    • (2013) Cancer Sci , vol.104 , pp. 304-312
    • Yamada, Y.1    Hidaka, H.2    Seki, N.3    Yoshino, H.4    Yamasaki, T.5    Itesako, T.6
  • 41
    • 74249123570 scopus 로고    scopus 로고
    • The miR-34 family in cancer and apoptosis
    • Hermeking H. The miR-34 family in cancer and apoptosis. Cell Death Differ. 2010;17:193-9.
    • (2010) Cell Death Differ , vol.17 , pp. 193-199
    • Hermeking, H.1
  • 43
    • 33947262696 scopus 로고    scopus 로고
    • AU-rich-element-mediated upregulation of translation by FXR1 and Argonaute 2
    • Vasudevan S, Steitz JA. AU-rich-element-mediated upregulation of translation by FXR1 and Argonaute 2. Cell. 2007;128:1105-18.
    • (2007) Cell , vol.128 , pp. 1105-1118
    • Vasudevan, S.1    Steitz, J.A.2
  • 44
  • 45
    • 67449097427 scopus 로고    scopus 로고
    • Double stranded-RNA-mediated activation of P21 gene induced apoptosis and cell cycle arrest in renal cell carcinoma
    • Whitson JM, Noonan EJ, Pookot D, Place RF, Dahiya R. Double stranded-RNA-mediated activation of P21 gene induced apoptosis and cell cycle arrest in renal cell carcinoma. Int J Cancer. 2009;125:446-52.
    • (2009) Int J Cancer , vol.125 , pp. 446-452
    • Whitson, J.M.1    Noonan, E.J.2    Pookot, D.3    Place, R.F.4    Dahiya, R.5
  • 46
    • 68949205722 scopus 로고    scopus 로고
    • Correlations between RNA and protein expression profiles in 23 human cell lines
    • Gry M, Rimini R, Stromberg S, Asplund A, Ponten F, Uhlen M, et al. Correlations between RNA and protein expression profiles in 23 human cell lines. BMC Genomics. 2009;10:365.
    • (2009) BMC Genomics , vol.10 , pp. 365
    • Gry, M.1    Rimini, R.2    Stromberg, S.3    Asplund, A.4    Ponten, F.5    Uhlen, M.6
  • 47
    • 0034948896 scopus 로고    scopus 로고
    • A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes
    • Baldi P, Long AD. A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes. Bioinformatics. 2001;17:509-19.
    • (2001) Bioinformatics , vol.17 , pp. 509-519
    • Baldi, P.1    Long, A.D.2
  • 48
    • 70350023532 scopus 로고    scopus 로고
    • Improved base calling for the Illumina Genome Analyzer using machine learning strategies
    • Kircher M, Stenzel U, Kelso J. Improved base calling for the Illumina Genome Analyzer using machine learning strategies. Genome Biol. 2009;10:R83.
    • (2009) Genome Biol , vol.10 , pp. R83
    • Kircher, M.1    Stenzel, U.2    Kelso, J.3
  • 49
    • 58149421595 scopus 로고
    • Analysis of a complex of statistical variables into principal components
    • Hotelling H. Analysis of a complex of statistical variables into principal components. J Educ Psychol. 1933;24:417-41.
    • (1933) J Educ Psychol , vol.24 , pp. 417-441
    • Hotelling, H.1
  • 52
    • 81055140401 scopus 로고    scopus 로고
    • Proteomic analysis of early response lymph node proteins in mice treated with titanium dioxide nanoparticles
    • Gao Y, Gopee NV, Howard PC, Yu LR. Proteomic analysis of early response lymph node proteins in mice treated with titanium dioxide nanoparticles. J Proteomics. 2011;74:2745-59.
    • (2011) J Proteomics , vol.74 , pp. 2745-2759
    • Gao, Y.1    Gopee, N.V.2    Howard, P.C.3    Yu, L.R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.