메뉴 건너뛰기




Volumn 21, Issue 8, 2014, Pages 1239-1248

Methods of quantifying MicroRNAs for hypoxia research: Classic and next generation

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA;

EID: 84894615681     PISSN: 15230864     EISSN: 15577716     Source Type: Journal    
DOI: 10.1089/ars.2013.5716     Document Type: Review
Times cited : (5)

References (64)
  • 1
    • 84875476368 scopus 로고    scopus 로고
    • Mirdeep: An integrated application tool for miRNA identification from RNA sequencing data
    • An J, Lai J, Lehman ML, and Nelson CC. miRDeep.: An integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res 41: 727-737, 2013
    • (2013) Nucleic Acids Res , vol.41 , pp. 727-737
    • An, J.1    Lai, J.2    Lehman, M.L.3    Nelson, C.C.4
  • 4
    • 77953483108 scopus 로고    scopus 로고
    • MicroRNA-210: A unique and pleiotropic hypoxamir
    • Chan SY and Loscalzo J. MicroRNA-210: A unique and pleiotropic hypoxamir. Cell Cycle 9: 1072-1083, 2010
    • (2010) Cell Cycle , vol.9 , pp. 1072-1083
    • Chan, S.Y.1    Loscalzo, J.2
  • 7
    • 84878845628 scopus 로고    scopus 로고
    • MicroRNA-210 targets antiapoptotic Bcl-2 expression and mediates hypoxia-induced apoptosis of neuroblastoma cells
    • Chio CC, Lin JW, Cheng HA, Chiu WT, Wang YH, Wang JJ, Hsing CH, and Chen RM. MicroRNA-210 targets antiapoptotic Bcl-2 expression and mediates hypoxia-induced apoptosis of neuroblastoma cells. Arch Toxicol 87: 459-468, 2013
    • (2013) Arch Toxicol , vol.87 , pp. 459-468
    • Chio, C.C.1    Lin, J.W.2    Cheng, H.A.3    Chiu, W.T.4    Wang, Y.H.5    Wang, J.J.6    Hsing, C.H.7    Chen, R.M.8
  • 9
    • 59149091637 scopus 로고    scopus 로고
    • MicroRNA regulation of DNA repair gene expression in hypoxic stress
    • Crosby ME, Kulshreshtha R, Ivan M, and Glazer PM. MicroRNA regulation of DNA repair gene expression in hypoxic stress. Cancer Res 69: 1221-1229, 2009
    • (2009) Cancer Res , vol.69 , pp. 1221-1229
    • Crosby, M.E.1    Kulshreshtha, R.2    Ivan, M.3    Glazer, P.M.4
  • 10
    • 84883492771 scopus 로고    scopus 로고
    • Kraken: A set of tools for quality control and analysis of high-Throughput sequence data
    • Davis MP, van Dongen S, Abreu-Goodger C, Bartonicek N, and Enright AJ. Kraken: A set of tools for quality control and analysis of high-Throughput sequence data. Methods 63: 41-49, 2013
    • (2013) Methods , vol.63 , pp. 41-49
    • Davis, M.P.1    Van Dongen, S.2    Abreu-Goodger, C.3    Bartonicek, N.4    Enright, A.J.5
  • 11
    • 79952137486 scopus 로고    scopus 로고
    • Mir-210:more than a silent player in hypoxia
    • Devlin C, Greco S, Martelli F, and IvanM.miR-210:more than a silent player in hypoxia. IUBMB Life 63: 94-100, 2011
    • (2011) IUBMB Life , vol.63 , pp. 94-100
    • Devlin, C.1    Greco, S.2    Martelli, F.3    Ivan, M.4
  • 14
    • 0032545933 scopus 로고    scopus 로고
    • Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans
    • Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, and Mello CC. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391: 806-811, 1998
    • (1998) Nature , vol.391 , pp. 806-811
    • Fire, A.1    Xu, S.2    Montgomery, M.K.3    Kostas, S.A.4    Driver, S.E.5    Mello, C.C.6
  • 20
    • 79959953839 scopus 로고    scopus 로고
    • Miranalyzer: An update on the detection and analysis of microRNAs in high-Throughput sequencing experiments
    • Hackenberg M, Rodriguez-Ezpeleta N, and Aransay AM. miRanalyzer: An update on the detection and analysis of microRNAs in high-Throughput sequencing experiments. Nucleic Acids Res 39: W132-W138, 2011
    • (2011) Nucleic Acids Res , vol.39
    • Hackenberg, M.1    Rodriguez-Ezpeleta, N.2    Aransay, A.M.3
  • 24
    • 54049105673 scopus 로고    scopus 로고
    • Hypoxia response and microRNAs: No longer two separate worlds
    • Ivan M, Harris AL, Martelli F, and Kulshreshtha R. Hypoxia response and microRNAs: No longer two separate worlds. J Cell Mol Med 12: 1426-1431, 2008
    • (2008) J Cell Mol Med , vol.12 , pp. 1426-1431
    • Ivan, M.1    Harris, A.L.2    Martelli, F.3    Kulshreshtha, R.4
  • 25
    • 82255185567 scopus 로고    scopus 로고
    • Identification and remediation of biases in the activity of RNA ligases in small-RNA deep sequencing
    • Jayaprakash AD, Jabado O, Brown BD, and Sachidanandam R. Identification and remediation of biases in the activity of RNA ligases in small-RNA deep sequencing. Nucleic Acids Res 39: E141, 2011
    • (2011) Nucleic Acids Res , vol.39
    • Jayaprakash, A.D.1    Jabado, O.2    Brown, B.D.3    Sachidanandam, R.4
  • 26
    • 78349263027 scopus 로고    scopus 로고
    • Reduction of non-insert sequence reads by dimer eliminator LNA oligonucleotide for small RNA deep sequencing
    • Kawano M, Kawazu C, Lizio M, Kawaji H, Carninci P, Suzuki H, and Hayashizaki Y. Reduction of non-insert sequence reads by dimer eliminator LNA oligonucleotide for small RNA deep sequencing. Biotechniques 49: 751-755, 2010
    • (2010) Biotechniques , vol.49 , pp. 751-755
    • Kawano, M.1    Kawazu, C.2    Lizio, M.3    Kawaji, H.4    Carninci, P.5    Suzuki, H.6    Hayashizaki, Y.7
  • 30
    • 0035955361 scopus 로고    scopus 로고
    • An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
    • Lau NC, Lim LP, Weinstein EG, and Bartel DP. An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294: 858-862, 2001
    • (2001) Science , vol.294 , pp. 858-862
    • Lau, N.C.1    Lim, L.P.2    Weinstein, E.G.3    Bartel, D.P.4
  • 32
    • 42049095870 scopus 로고    scopus 로고
    • MicroRNA expression profiling using microarrays
    • Liu CG, Calin GA, Volinia S, and Croce CM. MicroRNA expression profiling using microarrays. Nat Protoc 3: 563-578, 2008
    • (2008) Nat Protoc , vol.3 , pp. 563-578
    • Liu, C.G.1    Calin, G.A.2    Volinia, S.3    Croce, C.M.4
  • 35
    • 84858379476 scopus 로고    scopus 로고
    • MicroRNAs in stress signaling and human Disease
    • Mendell JT and Olson EN. MicroRNAs in stress signaling and human Disease. Cell 148: 1172-1187, 2012
    • (2012) Cell , vol.148 , pp. 1172-1187
    • Mendell, J.T.1    Olson, E.N.2
  • 38
    • 78649668009 scopus 로고    scopus 로고
    • Optimization of enzymatic reaction conditions for generating representative pools of cDNA from small RNA
    • Munafo DB and Robb GB. Optimization of enzymatic reaction conditions for generating representative pools of cDNA from small RNA. RNA 16: 2537-2552, 2010
    • (2010) RNA , vol.16 , pp. 2537-2552
    • Munafo, D.B.1    Robb, G.B.2
  • 39
  • 44
    • 42449098100 scopus 로고    scopus 로고
    • Normalization of microRNA expression levels in quantitative RT-PCR assays: Identification of suitable reference RNA targets in normal and cancerous human solid tissues
    • Peltier HJ and Latham GJ. Normalization of microRNA expression levels in quantitative RT-PCR assays: Identification of suitable reference RNA targets in normal and cancerous human solid tissues. RNA 14: 844-852, 2008
    • (2008) RNA , vol.14 , pp. 844-852
    • Peltier, H.J.1    Latham, G.J.2
  • 47
    • 27144543663 scopus 로고    scopus 로고
    • Simple, quantitative primer-extension PCR assay for direct monitoring of microRNAs and shortinterfering RNAs
    • Raymond CK, Roberts BS, Garrett-Engele P, Lim LP, and Johnson JM. Simple, quantitative primer-extension PCR assay for direct monitoring of microRNAs and shortinterfering RNAs. RNA 11: 1737-1744, 2005
    • (2005) RNA , vol.11 , pp. 1737-1744
    • Raymond, C.K.1    Roberts, B.S.2    Garrett-Engele, P.3    Lim, L.P.4    Johnson, J.M.5
  • 53
    • 44949231424 scopus 로고    scopus 로고
    • Analyzing real-Time PCR data by the comparative C(T) method
    • Schmittgen TD and Livak KJ. Analyzing real-Time PCR data by the comparative C(T) method. Nat Protoc 3: 1101-1108, 2008
    • (2008) Nat Protoc , vol.3 , pp. 1101-1108
    • Schmittgen, T.D.1    Livak, K.J.2
  • 56
    • 79959757662 scopus 로고    scopus 로고
    • T4 RNA ligase 2 truncated active site mutants: Improved tools for RNA analysis
    • Viollet S, Fuchs RT, Munafo DB, Zhuang F, and Robb GB. T4 RNA ligase 2 truncated active site mutants: Improved tools for RNA analysis. BMC Biotechnol 11: 72, 2011
    • (2011) BMC Biotechnol , vol.11 , pp. 72
    • Viollet, S.1    Fuchs, R.T.2    Munafo, D.B.3    Zhuang, F.4    Robb, G.B.5
  • 58
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: A revolutionary tool for transcriptomics
    • Wang Z, Gerstein M, and Snyder M. RNA-Seq: A revolutionary tool for transcriptomics. Nat Rev Genet 10: 57-63, 2009
    • (2009) Nat Rev Genet , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 59
    • 79952707365 scopus 로고    scopus 로고
    • Endogenous controls for real-Time quantitation of miRNA using TaqMan MicroRNA assays
    • Wong L, Lee K, Russell I, and Chen C. Endogenous controls for real-Time quantitation of miRNA using TaqMan MicroRNA assays. Appl Biosyst Application Note 2007
    • (2007) Appl Biosyst Application Note
    • Wong, L.1    Lee, K.2    Russell, I.3    Chen, C.4
  • 60
    • 83255192187 scopus 로고    scopus 로고
    • Hypoxia potentiates microRNAmediated gene silencing through posttranslational modification of Argonaute2
    • Wu C, So J, Davis-Dusenbery BN, Qi HH, Bloch DB, Shi Y, Lagna G, and Hata A. Hypoxia potentiates microRNAmediated gene silencing through posttranslational modification of Argonaute2. Mol Cell Biol 31: 4760-4774, 2011
    • (2011) Mol Cell Biol , vol.31 , pp. 4760-4774
    • Wu, C.1    So, J.2    Davis-Dusenbery, B.N.3    Qi, H.H.4    Bloch, D.B.5    Shi, Y.6    Lagna, G.7    Hata, A.8
  • 61
    • 80052527459 scopus 로고    scopus 로고
    • Posttranscriptional generation of miRNA variants by multiple nucleotidyl transferases contributes to miRNA transcriptome complexity
    • Wyman SK, Knouf EC, Parkin RK, Fritz BR, Lin DW, Dennis LM, Krouse MA, Webster PJ, and Tewari M. Posttranscriptional generation of miRNA variants by multiple nucleotidyl transferases contributes to miRNA transcriptome complexity. Genome Res 21: 1450-1461, 2011
    • (2011) Genome Res , vol.21 , pp. 1450-1461
    • Wyman, S.K.1    Knouf, E.C.2    Parkin, R.K.3    Fritz, B.R.4    Lin, D.W.5    Dennis, L.M.6    Krouse, M.A.7    Webster, P.J.8    Tewari, M.9
  • 63
    • 0033575003 scopus 로고    scopus 로고
    • Direct comparison of GAPDH, beta-Actin, cyclophilin, and 28S rRNA as internal standards for quantifying RNA levels under hypoxia
    • Zhong H and Simons JW. Direct comparison of GAPDH, beta-Actin, cyclophilin, and 28S rRNA as internal standards for quantifying RNA levels under hypoxia. Biochem Biophys Res Commun 259: 523-526, 1999
    • (1999) Biochem Biophys Res Commun , vol.259 , pp. 523-526
    • Zhong, H.1    Simons, J.W.2
  • 64
    • 77954330416 scopus 로고    scopus 로고
    • Mirtools: MicroRNA profiling and discovery based on high-Throughput sequencing
    • Zhu E, Zhao F, Xu G, Hou H, Zhou L, Li X, Sun Z, and Wu J. mirTools: MicroRNA profiling and discovery based on high-Throughput sequencing. Nucleic Acids Res 38: W392-W397, 2010
    • (2010) Nucleic Acids Res , vol.38
    • Zhu, E.1    Zhao, F.2    Xu, G.3    Hou, H.4    Zhou, L.5    Li, X.6    Sun, Z.7    Wu, J.8


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.