메뉴 건너뛰기




Volumn 19, Issue 7, 2013, Pages 876-888

The use of miRNA microarrays for the analysis of cancer samples with global miRNA decrease

Author keywords

Dicer1; MicroRNA; MiRNA microarray; Normalization

Indexed keywords

MICRORNA;

EID: 84879296979     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.035055.112     Document Type: Article
Times cited : (51)

References (52)
  • 1
    • 74249084440 scopus 로고    scopus 로고
    • miR-15a and miR-16-1 in cancer: Discovery, function and future perspectives
    • Aqeilan RI, Calin GA, Croce CM. 2010. miR-15a and miR-16-1 in cancer: Discovery, function and future perspectives. Cell Death Differ 17: 215-220.
    • (2010) Cell Death Differ , vol.17 , pp. 215-220
    • Aqeilan, R.I.1    Calin, G.A.2    Croce, C.M.3
  • 2
    • 0036703184 scopus 로고    scopus 로고
    • The expanding snoRNA world
    • DOI 10.1016/S0300-9084(02)01402-5, PII S0300908402014025
    • Bachellerie JP, Cavaille J, Huttenhofer A. 2002. The expanding snoRNA world. Biochimie 84: 775-790. (Pubitemid 35363462)
    • (2002) Biochimie , vol.84 , Issue.8 , pp. 775-790
    • Bachellerie, J.-P.1    Cavaille, J.2    Huttenhofer, A.3
  • 3
    • 8844271685 scopus 로고    scopus 로고
    • Faster cyclic loess: Normalizing RNA arrays via linear models
    • DOI 10.1093/bioinformatics/bth327
    • Ballman KV, Grill DE, Oberg AL, Therneau TM. 2004. Faster cyclic loess: Normalizing RNA arrays via linear models. Bioinformatics 20: 2778-2786. (Pubitemid 39530164)
    • (2004) Bioinformatics , vol.20 , Issue.16 , pp. 2778-2786
    • Ballman, K.V.1    Grill, D.E.2    Oberg, A.L.3    Therneau, T.M.4
  • 5
    • 0037316303 scopus 로고    scopus 로고
    • A comparison of normalization methods for high density oligonucleotide array data based on variance and bias
    • DOI 10.1093/bioinformatics/19.2.185
    • Bolstad BM, Irizarry RA, Astrand M, Speed TP. 2003. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 19: 185-193. (Pubitemid 36181903)
    • (2003) Bioinformatics , vol.19 , Issue.2 , pp. 185-193
    • Bolstad, B.M.1    Irizarry, R.A.2    Astrand, M.3    Speed, T.P.4
  • 6
    • 77953183812 scopus 로고    scopus 로고
    • A dicer-independent miRNA biogenesis pathway that requires Ago catalysis
    • Cheloufi S, Santos COD, Chong MMW, Hannon GJ. 2010. A dicer-independent miRNA biogenesis pathway that requires Ago catalysis. Nature 465: 584-589.
    • (2010) Nature , vol.465 , pp. 584-589
    • Cheloufi, S.1    Santos, C.O.D.2    Chong, M.M.W.3    Hannon, G.J.4
  • 7
    • 45549109664 scopus 로고    scopus 로고
    • Enhanced identification and biological validation of differential gene expression via Illumina whole-genome expression arrays through the use of the model-based background correction methodology
    • Ding L-H, Xie Y, Park S, Xiao G, Story MD. 2008. Enhanced identification and biological validation of differential gene expression via Illumina whole-genome expression arrays through the use of the model-based background correction methodology. Nucleic Acids Res 36: e58.
    • (2008) Nucleic Acids Res , vol.36
    • Ding, L.-H.1    Xie, Y.2    Park, S.3    Xiao, G.4    Story, M.D.5
  • 8
    • 77952572587 scopus 로고    scopus 로고
    • New perspectives in microRNA regulation of innate immunity
    • Gantier MP. 2010. New perspectives in microRNA regulation of innate immunity. J Interferon Cytokine Res 30: 283-289.
    • (2010) J Interferon Cytokine Res , vol.30 , pp. 283-289
    • Gantier, M.P.1
  • 11
    • 84861370963 scopus 로고    scopus 로고
    • Evaluation of normalization methods in mammalian microRNA-Seq data
    • Garmire LX, Subramaniam S. 2012. Evaluation of normalization methods in mammalian microRNA-Seq data. RNA 18: 1279-1288.
    • (2012) RNA , vol.18 , pp. 1279-1288
    • Garmire, L.X.1    Subramaniam, S.2
  • 12
    • 34047270440 scopus 로고    scopus 로고
    • Characterization of microRNA expression levels and their biological correlates in human cancer cell lines
    • DOI 10.1158/0008-5472.CAN-06-2698
    • Gaur A, Jewell DA, Liang Y, Ridzon D, Moore JH, Chen C, Ambros VR, Israel MA. 2007. Characterization of microRNA expression levels and their biological correlates in human cancer cell lines. Cancer Res 67: 2456-2468. (Pubitemid 46548930)
    • (2007) Cancer Research , vol.67 , Issue.6 , pp. 2456-2468
    • Gaur, A.1    Jewell, D.A.2    Liang, Y.3    Ridzon, D.4    Moore, J.H.5    Chen, C.6    Ambros, V.R.7    Israel, M.A.8
  • 13
    • 1342288026 scopus 로고    scopus 로고
    • Affy - Analysis of Affymetrix GeneChip data at the probe level
    • DOI 10.1093/bioinformatics/btg405
    • Gautier L, Cope L, Bolstad BM, Irizarry RA. 2004. affy - analysis of Affymetrix GeneChip data at the probe level. Bioinformatics 20: 307-315. (Pubitemid 38262761)
    • (2004) Bioinformatics , vol.20 , Issue.3 , pp. 307-315
    • Gautier, L.1    Cope, L.2    Bolstad, B.M.3    Irizarry, R.A.4
  • 16
    • 77949621355 scopus 로고    scopus 로고
    • miRBase: MicroRNA sequences and annotation
    • Chapter 12
    • Griffiths-Jones S. 2010. miRBase: microRNA sequences and annotation. Chapter 12. In Curr Protoc Bioinformatics, pp. 12.19.11-12.910.
    • (2010) Curr Protoc Bioinformatics
    • Griffiths-Jones, S.1
  • 17
    • 46949098160 scopus 로고    scopus 로고
    • Comparison of normalization methods with microRNA microarray
    • Hua Y-J, Tu K, Tang Z-Y, Li Y-X, Xiao H-S. 2008. Comparison of normalization methods with microRNA microarray. Genomics 92: 122-128.
    • (2008) Genomics , vol.92 , pp. 122-128
    • Hua, Y.-J.1    Tu, K.2    Tang, Z.-Y.3    Li, Y.-X.4    Xiao, H.-S.5
  • 20
    • 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. Nat Rev Genet 11: 597-610.
    • (2010) Nat Rev Genet , vol.11 , pp. 597-610
    • Krol, J.1    Loedige, I.2    Filipowicz, W.3
  • 25
    • 79959847017 scopus 로고    scopus 로고
    • Dysregulation of microRNAs in cancer: Playing with fire
    • Melo SA, Esteller M. 2011. Dysregulation of microRNAs in cancer: Playing with fire. FEBS Lett 585: 2087-2099.
    • (2011) FEBS Lett , vol.585 , pp. 2087-2099
    • Melo, S.A.1    Esteller, M.2
  • 29
    • 78149407836 scopus 로고    scopus 로고
    • Normalization strategies for microRNA profiling experiments: A 'normal' way to a hidden layer of complexity?
    • Meyer SU, Pfaffl MW, Ulbrich SE. 2010. Normalization strategies for microRNA profiling experiments: A 'normal' way to a hidden layer of complexity? Biotechnol Lett 32: 1777-1788.
    • (2010) Biotechnol Lett , vol.32 , pp. 1777-1788
    • Meyer, S.U.1    Pfaffl, M.W.2    Ulbrich, S.E.3
  • 30
    • 84862489277 scopus 로고    scopus 로고
    • Profound effect of profiling platform and normalization strategy on detection of differentially expressed microRNAs - A comparative study
    • Meyer SU, Kaiser S, Wagner C, Thirion C, Pfaffl MW. 2012. Profound effect of profiling platform and normalization strategy on detection of differentially expressed microRNAs - a comparative study. PLoS One 7: e38946.
    • (2012) PLoS One , vol.7
    • Meyer, S.U.1    Kaiser, S.2    Wagner, C.3    Thirion, C.4    Pfaffl, M.W.5
  • 32
    • 34147174227 scopus 로고    scopus 로고
    • Normalization of boutique two-color microarrays with a high proportion of differentially expressed probes
    • Oshlack A, Emslie D, Corcoran LM, Smyth GK. 2007. Normalization of boutique two-color microarrays with a high proportion of differentially expressed probes. Genome Biol 8: R2.
    • (2007) Genome Biol , vol.8
    • Oshlack, A.1    Emslie, D.2    Corcoran, L.M.3    Smyth, G.K.4
  • 33
    • 40749090479 scopus 로고    scopus 로고
    • Widespread deregulation of microRNA expression in human prostate cancer
    • DOI 10.1038/sj.onc.1210809, PII 1210809
    • Ozen M, Creighton CJ, Ozdemir M, Ittmann M. 2008. Widespread deregulation of microRNA expression in human prostate cancer. Oncogene 27: 1788-1793. (Pubitemid 351380263)
    • (2008) Oncogene , vol.27 , Issue.12 , pp. 1788-1793
    • Ozen, M.1    Creighton, C.J.2    Ozdemir, M.3    Ittmann, M.4
  • 35
    • 79961135005 scopus 로고    scopus 로고
    • R Development Core Team. R Foundation for Statistical Computing, Vienna, Austria
    • R Development Core Team. 2011. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria.
    • (2011) R: A Language and Environment for Statistical Computing
  • 37
    • 70349258646 scopus 로고    scopus 로고
    • A modified LOESS normalization applied to microRNA arrays: A comparative evaluation
    • Risso D, Massa MS, Chiogna M, Romualdi C. 2009. A modified LOESS normalization applied to microRNA arrays: A comparative evaluation. Bioinformatics 25: 2685-2691.
    • (2009) Bioinformatics , vol.25 , pp. 2685-2691
    • Risso, D.1    Massa, M.S.2    Chiogna, M.3    Romualdi, C.4
  • 39
    • 35748949257 scopus 로고    scopus 로고
    • A comparison of background correction methods for two-colour microarrays
    • DOI 10.1093/bioinformatics/btm412
    • Ritchie ME, Silver J, Oshlack A, Holmes M, Diyagama D, Holloway A, Smyth GK. 2007. A comparison of background correction methods for two-colour microarrays. Bioinformatics 23: 2700-2707. (Pubitemid 350048334)
    • (2007) Bioinformatics , vol.23 , Issue.20 , pp. 2700-2707
    • Ritchie, M.E.1    Silver, J.2    Oshlack, A.3    Holmes, M.4    Diyagama, D.5    Holloway, A.6    Smyth, G.K.7
  • 41
    • 78650483491 scopus 로고    scopus 로고
    • Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips
    • Shi W, Oshlack A, Smyth GK. 2010b. Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips. Nucleic Acids Res 38: e204.
    • (2010) Nucleic Acids Res , vol.38
    • Shi, W.1    Oshlack, A.2    Smyth, G.K.3
  • 42
    • 61449107655 scopus 로고    scopus 로고
    • Microarray background correction: Maximum likelihood estimation for the normal-exponential convolution
    • Silver JD, Ritchie ME, Smyth GK. 2009. Microarray background correction: Maximum likelihood estimation for the normal-exponential convolution. Biostatistics 10: 352-363.
    • (2009) Biostatistics , vol.10 , pp. 352-363
    • Silver, J.D.1    Ritchie, M.E.2    Smyth, G.K.3
  • 43
    • 4544341015 scopus 로고    scopus 로고
    • Linear models and empirical Bayes methods for assessing differential expression in microarray experiments
    • 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 , pp. 3
    • Smyth, G.K.1
  • 45
    • 0242333835 scopus 로고    scopus 로고
    • Normalization of cDNA microarray data
    • DOI 10.1016/S1046-2023(03)00155-5
    • Smyth GK, Speed T. 2003. Normalization of cDNA microarray data. Methods 31: 265-273. (Pubitemid 37338763)
    • (2003) Methods , vol.31 , Issue.4 , pp. 265-273
    • Smyth, G.K.1    Speed, T.2
  • 49
    • 77958078078 scopus 로고    scopus 로고
    • Subset quantile normalization using negative control features
    • Wu Z, Aryee MJ. 2010. Subset quantile normalization using negative control features. J Comput Biol 17: 1385-1395.
    • (2010) J Comput Biol , vol.17 , pp. 1385-1395
    • Wu, Z.1    Aryee, M.J.2
  • 51
    • 1342294092 scopus 로고    scopus 로고
    • Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation
    • Yang YH, Dudoit S, Luu P, Lin DM, Peng V, Ngai J, Speed TP. 2002. Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res 30: e15.
    • (2002) Nucleic Acids Res , vol.30
    • Yang, Y.H.1    Dudoit, S.2    Luu, P.3    Lin, D.M.4    Peng, V.5    Ngai, J.6    Speed, T.P.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.