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Volumn 7, Issue , 2006, Pages

Empirical array quality weights in the analysis of microarray data

Author keywords

[No Author keywords available]

Indexed keywords

ANALYSIS OF DATA; DIFFERENTIAL EXPRESSIONS; DIFFERENTIALLY EXPRESSED GENE; HETEROSCEDASTIC; MICROARRAY DATA; MICROARRAY EXPERIMENTS; REPRODUCIBILITIES; UPDATE ALGORITHMS;

EID: 33748865331     PISSN: 14712105     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-7-261     Document Type: Article
Times cited : (240)

References (36)
  • 1
    • 0038048164 scopus 로고    scopus 로고
    • Statistical issues in cDNA microarray data analysis
    • Smyth GK, Yang YH, Speed TP: Statistical issues in cDNA microarray data analysis. Methods Mol Biol 2003, 224:111-136.
    • (2003) Methods Mol Biol , vol.224 , pp. 111-136
    • Smyth, G.K.1    Yang, Y.H.2    Speed, T.P.3
  • 3
    • 0242333835 scopus 로고    scopus 로고
    • Normalization of cDNA microarray data
    • Smyth GK, Speed TP: Normalization of cDNA microarray data. Methods 2003, 31:265-273.
    • (2003) Methods , vol.31 , pp. 265-273
    • Smyth, G.K.1    Speed, T.P.2
  • 6
    • 0036793353 scopus 로고    scopus 로고
    • Assessing sources of variability in microarray gene expression data
    • Spruill SE, Lu J, Hardy S, Weir B: Assessing sources of variability in microarray gene expression data. Biotechniques 2002, 33:916-923.
    • (2002) Biotechniques , vol.33 , pp. 916-923
    • Spruill, S.E.1    Lu, J.2    Hardy, S.3    Weir, B.4
  • 7
    • 0035699287 scopus 로고    scopus 로고
    • Characterization of variability in large-scale gene expression data: Implications for study design
    • Novak JP, Sladek R, Hudson TJ: Characterization of variability in large-scale gene expression data: implications for study design. Genomics 2002, 79:104-113.
    • (2002) Genomics , vol.79 , pp. 104-113
    • Novak, J.P.1    Sladek, R.2    Hudson, T.J.3
  • 8
    • 0035433128 scopus 로고    scopus 로고
    • Quantitative quality control in microarray image processing and data acquisition
    • Wang X, Ghosh S, Guo SW: Quantitative quality control in microarray image processing and data acquisition. Nucleic Acids Res 2001, 29:e75.
    • (2001) Nucleic Acids Res , vol.29
    • Wang, X.1    Ghosh, S.2    Guo, S.W.3
  • 9
    • 18744422885 scopus 로고    scopus 로고
    • Microarray optimizations: Increasing spot accuracy and automated identification of true microarray signals
    • Tran PH, Peiffer DA, Shin Y, Meek LM, Brody JP, Cho KW: Microarray optimizations: increasing spot accuracy and automated identification of true microarray signals. Nucleic Acids Res 2002, 30:e54.
    • (2002) Nucleic Acids Res , vol.30
    • Tran, P.H.1    Peiffer, D.A.2    Shin, Y.3    Meek, L.M.4    Brody, J.P.5    Cho, K.W.6
  • 10
    • 0842321044 scopus 로고    scopus 로고
    • Normalization and analysis of cDNA microarrays using within-array replications applied to neuroblastoma cell response to a cytokine
    • Fan J, Tam P, Woude GV, Ren Y: Normalization and analysis of cDNA microarrays using within-array replications applied to neuroblastoma cell response to a cytokine. Proc Natl Acad Sci USA 2004, 101:1135-1140.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 1135-1140
    • Fan, J.1    Tam, P.2    Woude, G.V.3    Ren, Y.4
  • 17
    • 4644281352 scopus 로고    scopus 로고
    • A graphical approach for quality control of oligonucleotide array data
    • Chen DT: A graphical approach for quality control of oligonucleotide array data. J Biopharm Stat 2004, 14:591-606.
    • (2004) J Biopharm Stat , vol.14 , pp. 591-606
    • Chen, D.T.1
  • 19
    • 11244333072 scopus 로고    scopus 로고
    • Statistical process control for large scale microarray experiments
    • Model F, Konig T, Piepenbrock C, Adorjan P: Statistical process control for large scale microarray experiments. Bioinformatics 2002, 18(Suppl 1):S155-163.
    • (2002) Bioinformatics , vol.18 , Issue.SUPPL. 1
    • Model, F.1    Konig, T.2    Piepenbrock, C.3    Adorjan, P.4
  • 20
    • 84873086604 scopus 로고    scopus 로고
    • Supplementary materials
    • Supplementary materials [http://bioinf.wehi.edu.au/resources/ webReferences.html]
  • 21
    • 0346021343 scopus 로고    scopus 로고
    • Linear Models for Microarray Data Analysis: Hidden Similarities and Differences
    • Kerr MK: Linear Models for Microarray Data Analysis: Hidden Similarities and Differences. J Comput Biol 2003, 10:891-901.
    • (2003) J Comput Biol , vol.10 , pp. 891-901
    • Kerr, M.K.1
  • 22
    • 4544341015 scopus 로고    scopus 로고
    • Linear models and empirical Bayes methods for assessing differential expression in microarray experiments
    • Article 3
    • Smyth GK: Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004, 3(1):Article 3.
    • (2004) Stat Appl Genet Mol Biol , vol.3 , Issue.1
    • Smyth, G.K.1
  • 24
    • 0001769774 scopus 로고
    • Modelling Variance Heterogeneity: Residual Maximum Likelihood and Diagnostics
    • Verbyla A: Modelling Variance Heterogeneity: Residual Maximum Likelihood and Diagnostics. J R Stat Soc [Ser B] 1993, 55:493-508.
    • (1993) J R Stat Soc [Ser B] , vol.55 , pp. 493-508
    • Verbyla, A.1
  • 25
    • 84993699116 scopus 로고    scopus 로고
    • Exact and approximate REML for heteroscedastic regression
    • Smyth GK, Huele AF, Verbyla A: Exact and approximate REML for heteroscedastic regression. Statist Modelling 2001, 1:161-175.
    • (2001) Statist Modelling , vol.1 , pp. 161-175
    • Smyth, G.K.1    Huele, A.F.2    Verbyla, A.3
  • 27
    • 0003747844 scopus 로고    scopus 로고
    • CSIRO Mathematical and Information Sciences
    • Buckley MJ: The Spot user's guide. CSIRO Mathematical and Information Sciences 2000 [http://www.cmis.csiro.au/IAP/Spot/spotmanual.htm].
    • (2000) The Spot User's Guide
    • Buckley, M.J.1
  • 29
    • 0034869983 scopus 로고    scopus 로고
    • Normalization for cDNA microarray data. Microarrays: Optical Technologies and Informatics
    • Yang YH, Dudoit S, Luu P, Speed TP: Normalization for cDNA microarray data. Microarrays: Optical Technologies and Informatics, Proceedings of SPIE 2001, 4266:.
    • (2001) Proceedings of SPIE , pp. 4266
    • Yang, Y.H.1    Dudoit, S.2    Luu, P.3    Speed, T.P.4
  • 30
    • 33644872577 scopus 로고    scopus 로고
    • Limma: Linear models for microarray data
    • In Edited by: Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S. Springer, New York
    • Smyth GK: Limma: linear models for microarray data. In Bioinformatics and Computational Biology Solutions Using R and Bioconductor Edited by: Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S. Springer, New York; 2005:397-420.
    • (2005) Bioinformatics and Computational Biology Solutions Using R and Bioconductor , pp. 397-420
    • Smyth, G.K.1
  • 31
    • 23244447197 scopus 로고    scopus 로고
    • Significance Testing for Small Sample Microarray Experiments
    • Kooperberg C, Aragaki A, Strand AD, Olson JM: Significance Testing for Small Sample Microarray Experiments. Stat Med 2005, 24:2281-2298.
    • (2005) Stat Med , vol.24 , pp. 2281-2298
    • Kooperberg, C.1    Aragaki, A.2    Strand, A.D.3    Olson, J.M.4
  • 32
    • 84886754517 scopus 로고    scopus 로고
    • Limma
    • Limma [http://bioinf.wehi.edu.au/limma]
  • 33
    • 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 Stat Soc [Ser B] 1995, 57:289-300.
    • (1995) J R Stat Soc [Ser B] , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 34
    • 0036921818 scopus 로고    scopus 로고
    • An Efficient Algorithm for REML in Heteroscedastic Regression
    • Smyth GK: An Efficient Algorithm for REML in Heteroscedastic Regression. J Comput Graph Statist 2002, 11:836-847.
    • (2002) J Comput Graph Statist , vol.11 , pp. 836-847
    • Smyth, G.K.1
  • 35
    • 21444444852 scopus 로고    scopus 로고
    • Partitioned algorithms for maximum likelihood and other non-linear estimation
    • Smyth GK: Partitioned algorithms for maximum likelihood and other non-linear estimation. Stat Comput 1996, 6:201-216.
    • (1996) Stat Comput , vol.6 , pp. 201-216
    • Smyth, G.K.1
  • 36
    • 2642574503 scopus 로고    scopus 로고
    • A Language and Environment for Statistical Computing
    • R Development Core Team: R: R Foundation for Statistical Computing, Vienna, Austria
    • R Development Core Team: R: A Language and Environment for Statistical Computing. 2006 [http://www.R-project.org]. R Foundation for Statistical Computing, Vienna, Austria
    • (2006)


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