메뉴 건너뛰기




Volumn 100, Issue 471, 2005, Pages 814-829

A two-way semilinear model for normalization and analysis of cDNA microarray data

Author keywords

Analysis of variance; Differentially expressed gene; High dimensional data; Microarray; Noise level; Semiparametric regression; Spline; Variance estimation

Indexed keywords


EID: 13244283624     PISSN: 01621459     EISSN: None     Source Type: Journal    
DOI: 10.1198/016214504000002032     Document Type: Review
Times cited : (31)

References (27)
  • 2
    • 84984932472 scopus 로고    scopus 로고
    • Exploring the new world of the genome with microarrays
    • Brown, P. O., and Botstein, D. (1999), "Exploring the New World of the Genome With Microarrays," Nature Genetics, 21, 33-37.
    • (1999) Nature Genetics , vol.21 , pp. 33-37
    • Brown, P.O.1    Botstein, D.2
  • 3
    • 0034526621 scopus 로고    scopus 로고
    • Microarray expression profiling identifies genes with altered expression in HDL-deficient mice
    • Callow, M. J., Dudoit, S., Gong, E. L., Speed, T. P., and Rubin, E. M. (2000), "Microarray Expression Profiling Identifies Genes With Altered Expression in HDL-Deficient Mice," Genome Research, 10, 2022-2029.
    • (2000) Genome Research , vol.10 , pp. 2022-2029
    • Callow, M.J.1    Dudoit, S.2    Gong, E.L.3    Speed, T.P.4    Rubin, E.M.5
  • 4
    • 0031246430 scopus 로고    scopus 로고
    • Ratio-based decisions and the quantitative analysis of cDNA microarray images
    • Chen, Y., Dougherty, E. R., and Bittner, M. L. (1997), "Ratio-Based Decisions and the Quantitative Analysis of cDNA Microarray Images," Journal of Biomedical Optics, 2, 364-374.
    • (1997) Journal of Biomedical Optics , vol.2 , pp. 364-374
    • Chen, Y.1    Dougherty, E.R.2    Bittner, M.L.3
  • 5
    • 84936916896 scopus 로고
    • Robust locally weighted regression and smoothing scatterplots
    • Cleveland, W. S. (1979), "Robust Locally Weighted Regression and Smoothing Scatterplots," Journal of the American Statistical Association, 74, 829-836.
    • (1979) Journal of the American Statistical Association , vol.74 , pp. 829-836
    • Cleveland, W.S.1
  • 6
    • 0036376993 scopus 로고    scopus 로고
    • Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments
    • Dudoit, S., Yang, Y. H., Speed, T. P., and Callow, M. J. (2002), "Statistical Methods for Identifying Differentially Expressed Genes in Replicated cDNA Microarray Experiments," Statistica Sinica, 12, 111-139.
    • (2002) Statistica Sinica , vol.12 , pp. 111-139
    • Dudoit, S.1    Yang, Y.H.2    Speed, T.P.3    Callow, M.J.4
  • 8
    • 24644466471 scopus 로고    scopus 로고
    • Semilinear high-dimensional model for normalization of microarray data: A theoretical analysis and partial consistency
    • to appear
    • Fan, J., Peng, H., and Huang, T. (2004a), "Semilinear High-Dimensional Model for Normalization of Microarray Data: A Theoretical Analysis and Partial Consistency," Journal of the American Statistical Association, to appear.
    • (2004) Journal of the American Statistical Association
    • Fan, J.1    Peng, H.2    Huang, T.3
  • 9
    • 0842321044 scopus 로고    scopus 로고
    • Normalization and analysis of cDNA micro-arrays using within-array replications applied to neuroblastoma cell response to a cytokine
    • Fan, J., Tam, P., Vande Woude, G., and Ren, Y. (2004b), "Normalization and Analysis of cDNA Micro-Arrays Using Within-Array Replications Applied to Neuroblastoma Cell Response to a Cytokine," Proceedings of the National Academy of Science, 101, 1135-1140.
    • (2004) Proceedings of the National Academy of Science , vol.101 , pp. 1135-1140
    • Fan, J.1    Tam, P.2    Vande Woude, G.3    Ren, Y.4
  • 10
    • 0000871211 scopus 로고    scopus 로고
    • Efficient estimation of conditional variance functions in stochastic regression
    • Fan, J., and Yao, Q. (1998), "Efficient Estimation of Conditional Variance Functions in Stochastic Regression," Biometrika, 85, 645-660.
    • (1998) Biometrika , vol.85 , pp. 645-660
    • Fan, J.1    Yao, Q.2
  • 13
    • 24644444665 scopus 로고    scopus 로고
    • A semi-linear model for normalization and analysis of cDNA microarray data
    • University of Iowa, Department of Statistics
    • Huang, J., Kuo, H.-C., Koroleva, I., Zhang, C.-H., and Soares, M. B. (2003), "A Semi-Linear Model for Normalization and Analysis of cDNA Microarray Data," Tech Report 321, University of Iowa, Department of Statistics.
    • (2003) Tech Report , vol.321
    • Huang, J.1    Kuo, H.-C.2    Koroleva, I.3    Zhang, C.-H.4    Soares, M.B.5
  • 14
    • 24644522835 scopus 로고    scopus 로고
    • Asymptotic analysis of a two-way semi-parametric regression model for microarray data
    • to appear
    • Huang, J., and Zhang, C.-H. (2003), "Asymptotic Analysis of a Two-Way Semi-parametric Regression Model for Microarray Data," Statistica Sinica, to appear.
    • (2003) Statistica Sinica
    • Huang, J.1    Zhang, C.-H.2
  • 15
    • 0000884487 scopus 로고    scopus 로고
    • Experimental design for gene expression microarrays
    • Kerr, M. K., and Churchill, G. A. (2001), "Experimental Design for Gene Expression Microarrays," Biostatistics, 2, 183-201.
    • (2001) Biostatistics , vol.2 , pp. 183-201
    • Kerr, M.K.1    Churchill, G.A.2
  • 18
  • 19
    • 0037433040 scopus 로고    scopus 로고
    • Identifying differentially expressed genes using false discovery rate controlling procedures
    • Reiner, A., Yekutieli, D., and Benjamini, Y. (2003), "Identifying Differentially Expressed Genes Using False Discovery Rate Controlling Procedures," Bioinformatics, 19, 368-375.
    • (2003) Bioinformatics , vol.19 , pp. 368-375
    • Reiner, A.1    Yekutieli, D.2    Benjamini, Y.3
  • 20
    • 0031199387 scopus 로고    scopus 로고
    • Local polynomial variance-function estimation
    • Ruppert, D., Wand, M. P., Holst, U., and Hössjet, O. (1997), "Local Polynomial Variance-Function Estimation," Technometrics, 39, 262-273.
    • (1997) Technometrics , vol.39 , pp. 262-273
    • Ruppert, D.1    Wand, M.P.2    Holst, U.3    Hössjet, O.4
  • 21
    • 0028806048 scopus 로고
    • Quantitative monitoring of gene expression patterns with a complementary cDNA microarray
    • Schena, M., Shalon, D., Davis, R. W., and Brown, P. O. (1995), "Quantitative Monitoring of Gene Expression Patterns With a Complementary cDNA Microarray," Science, 270, 467-470.
    • (1995) Science , vol.270 , pp. 467-470
    • Schena, M.1    Shalon, D.2    Davis, R.W.3    Brown, P.O.4
  • 23
    • 0035875553 scopus 로고    scopus 로고
    • Issues in cDNA microarray analysis: Quality filtering, channel normalization, models of variation and assessment of gene effects
    • Tseng, G. C., Oh, M.-K., Rohlin, L., Liao, J. C., and Wong, W.-H. (2001), "Issues in cDNA Microarray Analysis: Quality Filtering, Channel Normalization, Models of Variation and Assessment of Gene Effects," Nucleic Acids Research, 29, 2549-2557.
    • (2001) Nucleic Acids Research , vol.29 , pp. 2549-2557
    • Tseng, G.C.1    Oh, M.-K.2    Rohlin, L.3    Liao, J.C.4    Wong, W.-H.5
  • 24
    • 0035942271 scopus 로고    scopus 로고
    • Significant analysis of microarrays applied to transcriptional response to ionizing radiation
    • Tusher, V. G., Tibshirani, R., and Chu, G. (2001), "Significant Analysis of Microarrays Applied to Transcriptional Response to Ionizing Radiation," Proceedings of the National Academy of Science, 98, 5116-5121.
    • (2001) Proceedings of the National Academy of Science , vol.98 , pp. 5116-5121
    • Tusher, V.G.1    Tibshirani, R.2    Chu, G.3
  • 25
    • 0002229002 scopus 로고
    • Partial spline models for semiparametric estimation of functions of several variables
    • Proceedings of the Japan-U.S. Joint Seminar, Tokyo
    • Wahba, G. (1984), "Partial Spline Models for Semiparametric Estimation of Functions of Several Variables," in Statistical Analysis of Time Series, Proceedings of the Japan-U.S. Joint Seminar, Tokyo, pp. 319-329.
    • (1984) Statistical Analysis of Time Series , pp. 319-329
    • Wahba, G.1
  • 27
    • 0034869983 scopus 로고    scopus 로고
    • Normalization for cDNA microarray data
    • Microarrays: Optical Technologies and Informatics, eds. M. L. Bittner, Y. Chen, A. N. Dorsel, and E. R. Dougherty, San Jose, CA: Society for Optical Engineering
    • Yang, Y. H., Dudoit, S., Luu, P., and Speed, T. P. (2001), "Normalization for cDNA Microarray Data," in Microarrays: Optical Technologies and Informatics, Vol. 4266 of Proceedings of the SPIE, eds. M. L. Bittner, Y. Chen, A. N. Dorsel, and E. R. Dougherty, San Jose, CA: Society for Optical Engineering, pp. 141-152.
    • (2001) Proceedings of the SPIE , vol.4266 , pp. 141-152
    • Yang, Y.H.1    Dudoit, S.2    Luu, P.3    Speed, T.P.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.