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Volumn 61, Issue , 2010, Pages 78-83

A simple Affymetrix ratio-transformation method yields comparable expression level quantifications with cDNA data

Author keywords

Affymetrix; Cdna; Childhood leukaemia; Gene expression profiling; Microarray

Indexed keywords

AFFYMETRIX; CDNA; CHILDHOOD LEUKEMIA; COMMON GROUND; CROSS-PLATFORM; DATA ATTRIBUTES; DATA SETS; DIFFERENTIALLY EXPRESSED GENE; EXPRESSION LEVELS; GAINING MOMENTUM; GENE EXPRESSION LEVELS; GENE EXPRESSION PROFILING; INTEGRATION METHOD; TRANSFORMATION METHODS; TUMOR DIAGNOSIS; CHILDHOOD LEUKAEMIA;

EID: 78651584610     PISSN: 2010376X     EISSN: 20103778     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (7)

References (33)
  • 1
    • 0028806048 scopus 로고
    • Quantitative monitoring of gene expression patterns with a complementary DNA microarray
    • Schena M, Shalon D, Davis RW, Brown PO. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 1995; 270(5235):467-70.
    • (1995) Science , vol.270 , Issue.5235 , pp. 467-470
    • Schena, M.1    Shalon, D.2    Davis, R.W.3    Brown, P.O.4
  • 2
    • 0029022831 scopus 로고
    • Genetic footprinting: A genomic strategy for determining a gene's function given its sequence
    • Smith V, Botstein D, Brown PO. Genetic footprinting: a genomic strategy for determining a gene's function given its sequence. Proc Natl Acad Sci USA 1995; 92(14):6479-83.
    • (1995) Proc Natl Acad Sci Usa , vol.92 , Issue.14 , pp. 6479-6483
    • Smith, V.1    Botstein, D.2    Brown, P.O.3
  • 9
    • 0030305457 scopus 로고    scopus 로고
    • R: A language for data analysis and graphics
    • Ihaka R, Gentleman R. R: a language for data analysis and graphics. J. Comput. Graph. Statist. 1996; 5:299-314.
    • (1996) J. Comput. Graph. Statist , vol.5 , pp. 299-314
    • Ihaka, R.1    Gentleman, R.2
  • 13
    • 0037316303 scopus 로고    scopus 로고
    • A comparison of normalization methods for high density oligonucleotide array data based on variance and bias
    • Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003; 19(2):185-93.
    • (2003) Bioinformatics , vol.19 , Issue.2 , pp. 185-193
    • Bolstad, B.M.1    Irizarry, R.A.2    Astrand, M.3    Speed, T.P.4
  • 16
    • 0002052683 scopus 로고    scopus 로고
    • Analysis of two way tables by medians
    • In: Hoaglin DC, Mosteller F, Tukey JW, NY, USA: Wiley-Interscience
    • Emerson J, Hoaglin D. Analysis of two way tables by medians. In: Hoaglin DC, Mosteller F, Tukey JW Understanding robust and exploratory data analysis. NY, USA: Wiley-Interscience, 2000. p. 166-207.
    • (2000) Understanding Robust and Exploratory Data Analysis , pp. 166-207
    • Emerson, J.1    Hoaglin, D.2
  • 18
    • 33749027459 scopus 로고    scopus 로고
    • Parameter estimation for the exponential-normal convolution model for background correction of affymetrix GeneChip data
    • Article24
    • McGee M, Chen Z. Parameter estimation for the exponential-normal convolution model for background correction of affymetrix GeneChip data. Stat Appl Genet Mol Biol 2006; 5(1):Article24.
    • (2006) Stat Appl Genet Mol Biol , vol.5 , Issue.1
    • McGee, M.1    Chen, Z.2
  • 19
    • 0242333835 scopus 로고    scopus 로고
    • Normalization of cDNA microarray data
    • Smyth GK, Speed T. Normalization of cDNA microarray data. Methods 2003; 31(4):265-73.
    • (2003) Methods , vol.31 , Issue.4 , pp. 265-273
    • Smyth, G.K.1    Speed, T.2
  • 20
    • 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. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res 2002; 30(4):e15.
    • (2002) Nucleic Acids Res , vol.30 , Issue.4
    • Yang, Y.H.1    Dudoit, S.2    Luu, P.3    Lin, D.M.4    Peng, V.5    Ngai, J.6    Speed, T.P.7
  • 21
    • 84936916896 scopus 로고
    • Robust locally weighted regression and smoothing scatterplots
    • Cleveland WS. Robust locally weighted regression and smoothing scatterplots. Journal of the American Statistical Association 1979; 74(368):829-36.
    • (1979) Journal of The American Statistical Association , vol.74 , Issue.368 , pp. 829-836
    • Cleveland, W.S.1
  • 23
    • 0035875553 scopus 로고    scopus 로고
    • Issues in cDNA microarray analysis: Quality filtering, channel normalization, models of variations and assessment of gene effects
    • Tseng GC, Oh MK, Rohlin L, Liao JC, Wong WH. Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations and assessment of gene effects. Nucleic Acids Res 2001; 29(12):2549-57.
    • (2001) Nucleic Acids Res , vol.29 , Issue.12 , pp. 2549-2557
    • Tseng, G.C.1    Oh, M.K.2    Rohlin, L.3    Liao, J.C.4    Wong, W.H.5
  • 24
    • 0034869983 scopus 로고    scopus 로고
    • Normalization for cDNA microarray data
    • In: Bittner ML, Chen Y, Dorsel AN, Dougherty ER, San Jose, California: SPIE-International Society for Optical Engineering
    • Yang YH, Dudoit S, Luu P, Speed TP. Normalization for cDNA microarray data. In: Bittner ML, Chen Y, Dorsel AN, Dougherty ER Microarrays: optical technologies and informatics (proceedings of SPIE). San Jose, California: SPIE-International Society for Optical Engineering, 2001. p. 141-52.
    • (2001) Microarrays: Optical Technologies and Informatics (proceedings of Spie) , pp. 141-152
    • Yang, Y.H.1    Dudoit, S.2    Luu, P.3    Speed, T.P.4
  • 25
    • 33644872577 scopus 로고    scopus 로고
    • Limma: Linear models for microarray data
    • In: Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S, New York: Springer
    • Smyth GK. Limma: linear models for microarray data. In: Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S Bioinformatics and Computational Biology Solutions using R and Bioconductor. New York: Springer, 2005. p. 397-420.
    • (2005) Bioinformatics and Computational Biology Solutions Using R and Bioconductor , pp. 397-420
    • Smyth, G.K.1
  • 26
    • 4544341015 scopus 로고    scopus 로고
    • Linear models and empirical bayes methods for assessing differential expression in microarray experiments
    • Article3
    • Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004; 3:Article3.
    • (2004) Stat Appl Genet Mol Biol , vol.3
    • Smyth, G.K.1
  • 28
    • 0001669952 scopus 로고
    • A stagewise rejective multiple test procedure based on a modified Bonferroni test
    • Hommel G. A stagewise rejective multiple test procedure based on a modified Bonferroni test. Biometrika 1988; 75(2):383-86.
    • (1988) Biometrika , vol.75 , Issue.2 , pp. 383-386
    • Hommel, G.1
  • 29
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Statist. Soc. 1995; 57:289-300.
    • (1995) J. R. Statist. Soc , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 30
    • 0002294347 scopus 로고
    • A simple sequentially rejective multiple test procedure
    • Holm S. A simple sequentially rejective multiple test procedure. Scandinavian Journal of Statistics 1979; 6(2):65-70.
    • (1979) Scandinavian Journal of Statistics , vol.6 , Issue.2 , pp. 65-70
    • Holm, S.1
  • 31
    • 33645762226 scopus 로고
    • A sharper Bonferroni procedure for multiple tests of significance
    • Hochberg Y. A sharper Bonferroni procedure for multiple tests of significance. Biometrika 1988; 75(4):800-02.
    • (1988) Biometrika , vol.75 , Issue.4 , pp. 800-802
    • Hochberg, Y.1
  • 32
    • 0035733108 scopus 로고    scopus 로고
    • The control of the false discovery rate in multiple testing under dependency
    • Benjamini Y, Yekutieli D. The control of the false discovery rate in multiple testing under dependency. Ann. Statist. 2001; 29(4):1165-88.
    • (2001) Ann. Statist , vol.29 , Issue.4 , pp. 1165-1188
    • Benjamini, Y.1    Yekutieli, D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.