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Volumn 1, Issue , 2006, Pages

Variation in fiberoptic bead-based oligonucleotide microarrays: Dispersion characteristics among hybridization and biological replicate samples

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EID: 34248384467     PISSN: None     EISSN: 17456150     Source Type: Journal    
DOI: 10.1186/1745-6150-1-18     Document Type: Review
Times cited : (20)

References (38)
  • 2
    • 0032837252 scopus 로고    scopus 로고
    • Computational methods for the identification of differential and coordinated gene expression
    • 10.1093/hmg/8.10.1821 10469833
    • Claverie JM Computational methods for the identification of differential and coordinated gene expression. Human molecular genetics 1999 8 1821-1832 10.1093/hmg/8.10.1821 10469833
    • (1999) Human Molecular Genetics , vol.8 , pp. 1821-1832
    • Claverie, J.M.1
  • 3
    • 0037276175 scopus 로고    scopus 로고
    • Statistical tests for differential expression in cDNA microarray experiments
    • 154570 12702200 10.1186/gb-2003-4-4-210
    • Cui X Churchill GA Statistical tests for differential expression in cDNA microarray experiments. Genome Biology 2003 4 210 154570 12702200 10.1186/gb-2003-4-4-210
    • (2003) Genome Biology , vol.4 , pp. 210
    • Cui, X.1    Churchill, G.A.2
  • 5
    • 27744601822 scopus 로고    scopus 로고
    • Improving molecular cancer class discovery through sparse non-negative matrix factorization
    • 10.1093/bioinformatics/bti653 16244221
    • Gao Y Church G Improving molecular cancer class discovery through sparse non-negative matrix factorization. Bioinformatics 2005 21 3970-3975 10.1093/bioinformatics/bti653 16244221
    • (2005) Bioinformatics , vol.21 , pp. 3970-3975
    • Gao, Y.1    Church, G.2
  • 6
    • 25444533045 scopus 로고    scopus 로고
    • Visualization methods for statistical analysis of microarray clusters
    • 1156867 15890080 10.1186/1471-2105-6-115
    • Hibbs MA Dirksen NC Li K Troyanskaya OG Visualization methods for statistical analysis of microarray clusters. BMC Bioinformatics 2005 6 115 1156867 15890080 10.1186/1471-2105-6-115
    • (2005) BMC Bioinformatics , vol.6 , pp. 115
    • Hibbs, M.A.1    Dirksen, N.C.2    Li, K.3    Troyanskaya, O.G.4
  • 7
    • 23144442351 scopus 로고    scopus 로고
    • VAMPIRE microarray suite: A web-based platform for the interpretation of gene expression data
    • 1160204 15980550 10.1093/nar/gki443
    • Hsiao A Ideker T Olefsky JM Subramaniam S VAMPIRE microarray suite: A web-based platform for the interpretation of gene expression data. Nucleic Acids Research 2005 33 W627-W632 1160204 15980550 10.1093/nar/ gki443
    • (2005) Nucleic Acids Research , vol.33
    • Hsiao, A.1    Ideker, T.2    Olefsky, J.M.3    Subramaniam, S.4
  • 9
    • 0035375137 scopus 로고    scopus 로고
    • Computational analysis of microarray data
    • 10.1038/35076576 11389458
    • Quackenbush J Computational analysis of microarray data. Nature reviews Genetics 2001 2 418-427 10.1038/35076576 11389458
    • (2001) Nature Reviews Genetics , vol.2 , pp. 418-427
    • Quackenbush, J.1
  • 10
    • 4444371602 scopus 로고    scopus 로고
    • Towards sound epistemological foundations of statistical methods for high-dimensional biology
    • 10.1038/ng1422
    • Mehta T Tanik M Allison DB Towards sound epistemological foundations of statistical methods for high-dimensional biology. Nature Genetics 2004 16 943-947 10.1038/ng1422
    • (2004) Nature Genetics , vol.16 , pp. 943-947
    • Mehta, T.1    Tanik, M.2    Allison, D.B.3
  • 11
    • 22144461265 scopus 로고    scopus 로고
    • Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset
    • 551536 15693945 10.1186/gb-2005-6-2-r16
    • Choe SE Boutros M Michelson AM Church GM Halfon MS Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset. Genome Biology 2005 6 R16 551536 15693945 10.1186/ gb-2005-6-2-r16
    • (2005) Genome Biology , vol.6
    • Choe, S.E.1    Boutros, M.2    Michelson, A.M.3    Church, G.M.4    Halfon, M.S.5
  • 12
    • 0035793042 scopus 로고    scopus 로고
    • Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection
    • 14539 11134512 10.1073/pnas.011404098
    • Li C Wong H Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection. Proceedings of the National Academy of Sciences of the United States of America 2001 98 31-36 14539 11134512 10.1073/pnas.011404098
    • (2001) Proceedings of the National Academy of Sciences of the United States of America , vol.98 , pp. 31-36
    • Li, C.1    Wong, H.2
  • 13
    • 17744413236 scopus 로고    scopus 로고
    • Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application
    • research 00321-3211
    • Li C Wong H Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application. Genome Biology 2001 2 research 00321-3211
    • (2001) Genome Biology , vol.2
    • Li, C.1    Wong, H.2
  • 14
    • 34248401518 scopus 로고    scopus 로고
    • Bolstad BM RMAExpress 2005 http://www.statberkeley.edu/~bolstad/ RMAExpress/RMAExpress.html
    • (2005)
    • Bolstad, B.M.1
  • 15
    • 0037316303 scopus 로고    scopus 로고
    • A comparison of normalization methods for high density oligonucleotide array data based on variance and bias
    • 10.1093/bioinformatics/19.2.185 12538238
    • 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 19 185-193 10.1093/bioinformatics/19.2.185 12538238
    • (2003) Bioinformatics , vol.19 , pp. 185-193
    • Bolstad, B.M.1    Irizarry, R.A.2    Astrand, M.3    Speed, T.P.4
  • 18
    • 0037317182 scopus 로고    scopus 로고
    • An associative analysis of gene expression array data
    • 10.1093/bioinformatics/19.2.204 12538240
    • Dozmorov I Centola M An associative analysis of gene expression array data. Bioinformatics 2003 19 204-211 10.1093/bioinformatics/19.2.204 12538240
    • (2003) Bioinformatics , vol.19 , pp. 204-211
    • Dozmorov, I.1    Centola, M.2
  • 20
    • 4244098036 scopus 로고    scopus 로고
    • A new approach for filtering noise from high-density oligonucleotide microarray datasets
    • 55837 11470887 10.1093/nar/29.15.e72
    • Mills JC Gordon JI A new approach for filtering noise from high-density oligonucleotide microarray datasets. Nucleic Acids Research 2001 29 E72 55837 11470887 10.1093/nar/29.15.e72
    • (2001) Nucleic Acids Research , vol.29
    • Mills, J.C.1    Gordon, J.I.2
  • 21
    • 0036178995 scopus 로고    scopus 로고
    • Control genes and variability: Absence of ubiquitous reference transcripts in diverse mammalian expression studies
    • 10.1101/gr.217802
    • Lee PD Sladek R Greenwood CMT Hudson TJ Control genes and variability: absence of ubiquitous reference transcripts in diverse mammalian expression studies. Genome Research 2001 12 292-297 10.1101/gr.217802
    • (2001) Genome Research , vol.12 , pp. 292-297
    • Lee, P.D.1    Sladek, R.2    Greenwood, C.M.T.3    Hudson, T.J.4
  • 22
    • 84947318637 scopus 로고
    • Locally weighted regression: An approach to regression analysis by local fitting
    • 10.2307/2289282
    • Cleveland WS Devlin SJ Locally weighted regression: An approach to regression analysis by local fitting. Journal of the American Statistical Association 1988 83 596-610 10.2307/2289282
    • (1988) Journal of the American Statistical Association , vol.83 , pp. 596-610
    • Cleveland, W.S.1    Devlin, S.J.2
  • 23
    • 0035699287 scopus 로고    scopus 로고
    • Characterization of variability in large-scale gene expression data: Implications for study design
    • 10.1006/geno.2001.6675 11827463
    • Novak JP Sladek R Hudson TJ Characterization of variability in large-scale gene expression data: Implications for study design. Genomics 2002 79 104-113 10.1006/geno.2001.6675 11827463
    • (2002) Genomics , vol.79 , pp. 104-113
    • Novak, J.P.1    Sladek, R.2    Hudson, T.J.3
  • 24
    • 0034948896 scopus 로고    scopus 로고
    • A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes
    • 10.1093/bioinformatics/17.6.509 11395427
    • Baldi P Long A A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes. Bioinformatics 2001 17 509-519 10.1093/bioinformatics/17.6.509 11395427
    • (2001) Bioinformatics , vol.17 , pp. 509-519
    • Baldi, P.1    Long, A.2
  • 25
    • 3042518853 scopus 로고    scopus 로고
    • A simple method for statistical analysis of intensity differences in microarray-derived gene expression data
    • 59472 11690545 10.1186/1472-6750-1-8
    • Kamb A Ramaswami M A simple method for statistical analysis of intensity differences in microarray-derived gene expression data. BMC Biotechnology 2001 1 8 59472 11690545 10.1186/1472-6750-1-8
    • (2001) BMC Biotechnology , vol.1 , pp. 8
    • Kamb, A.1    Ramaswami, M.2
  • 26
    • 0001072413 scopus 로고
    • A two-component model for measurement error in analytical chemistry
    • 10.2307/1269619
    • Rocke DM Lorenzato S A two-component model for measurement error in analytical chemistry. Technometrics 1995 37 176-184 10.2307/1269619
    • (1995) Technometrics , vol.37 , pp. 176-184
    • Rocke, D.M.1    Lorenzato, S.2
  • 27
    • 0035684378 scopus 로고    scopus 로고
    • A model for measurement error for gene expression arrays
    • 10.1089/106652701753307485 11747612
    • Rocke DM Durbin B A model for measurement error for gene expression arrays. Journal of Computational Biology 2001 8 557-569 10.1089/ 106652701753307485 11747612
    • (2001) Journal of Computational Biology , vol.8 , pp. 557-569
    • Rocke, D.M.1    Durbin, B.2
  • 30
    • 0035942271 scopus 로고    scopus 로고
    • Significance analysis of microarrays applied to the ionizing radiation response
    • erratum in: PNAS 2001, 98:10515. 33173 11309499 10.1073/pnas.091062498
    • Tusher VG Tibshirani R Chu G Significance analysis of microarrays applied to the ionizing radiation response. Proceedings of the National Academy of Sciences of the United States of America 2001 98 5116-5121; erratum in: PNAS 2001, 98:10515. 33173 11309499 10.1073/pnas.091062498
    • (2001) Proceedings of the National Academy of Sciences of the United States of America , vol.98 , pp. 5116-5121
    • Tusher, V.G.1    Tibshirani, R.2    Chu, G.3
  • 31
    • 0036856209 scopus 로고    scopus 로고
    • Nonparametric methods for identifying differentially expressed genes in microarray data
    • 10.1093/bioinformatics/18.11.1454 12424116
    • Troyanskaya OG Garber ME Brown PO Botstein D Altman RB Nonparametric methods for identifying differentially expressed genes in microarray data. Bioinformatics 2002 18 1454-1461 10.1093/bioinformatics/18.11.1454 12424116
    • (2002) Bioinformatics , vol.18 , pp. 1454-1461
    • Troyanskaya, O.G.1    Garber, M.E.2    Brown, P.O.3    Botstein, D.4    Altman, R.B.5
  • 32
    • 0012572299 scopus 로고    scopus 로고
    • A variance-stabilizing transformation for gene-expression microarray data
    • 12169537
    • Durbin BP Hardin JS Hawkins DM Rocke DM A variance-stabilizing transformation for gene-expression microarray data. Bioinformatics 2002 18 Suppl 1 S105-S110 12169537
    • (2002) Bioinformatics , vol.18 , Issue.SUPPL. 1
    • Durbin, B.P.1    Hardin, J.S.2    Hawkins, D.M.3    Rocke, D.M.4
  • 33
    • 0642275806 scopus 로고    scopus 로고
    • Probabilistic estimation of microarray data reliability and underlying gene expression
    • 222958 12967349 10.1186/1471-2105-4-40
    • Bilke S Breslin T Sigvardsson M Probabilistic estimation of microarray data reliability and underlying gene expression. BMC Bioinformatics 2003 4 40 222958 12967349 10.1186/1471-2105-4-40
    • (2003) BMC Bioinformatics , vol.4 , pp. 40
    • Bilke, S.1    Breslin, T.2    Sigvardsson, M.3
  • 34
  • 35
    • 0037106434 scopus 로고    scopus 로고
    • Evaluating test statistics to select interesting genes in microarray experiments
    • 10.1093/hmg/11.19.2223 12217950
    • Kooperberg C Sipione S LeBlanc M Strand AD Cattaneo E Olson JM Evaluating test statistics to select interesting genes in microarray experiments. Human molecular genetics 2002 11 2223-2232 10.1093/hmg/ 11.19.2223 12217950
    • (2002) Human Molecular Genetics , vol.11 , pp. 2223-2232
    • Kooperberg, C.1    Sipione, S.2    LeBlanc, M.3    Strand, A.D.4    Cattaneo, E.5    Olson, J.M.6
  • 36
  • 37
    • 13244292335 scopus 로고    scopus 로고
    • A power law global error model for the identification of differentially expressed genes in microarray data
    • Pavelka NPMVCCMSAGFRCP 545082 15606915 10.1186/1471-2105-5-203
    • Pavelka NPMVCCMSAGFRCP A power law global error model for the identification of differentially expressed genes in microarray data. BMC Bioinformatics 2004 5 203 545082 15606915 10.1186/1471-2105-5-203
    • (2004) BMC Bioinformatics , vol.5 , pp. 203
  • 38
    • 0037606155 scopus 로고    scopus 로고
    • Approximate variance-stabilizing transformations for gene-expression microarray data
    • 10.1093/bioinformatics/btg107
    • Rocke DM Durbin B Approximate variance-stabilizing transformations for gene-expression microarray data Bioinformatics 2003 19 966-972 10.1093/ bioinformatics/btg107
    • (2003) Bioinformatics , vol.19 , pp. 966-972
    • Rocke, D.M.1    Durbin, B.2


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