Microarray image analysis: background estimation using quantile and morphological filters.
作者： Anders Bengtsson , Henrik Bengtsson
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摘要: Background In a microarray experiment the difference in expression between genes on same slide is up to 103 fold or more. At low expression, even small error estimate will have great influence final test and reference ratios. In addition true spot intensity scanned signal consists of different kinds noise referred as background. order assess background must be subtracted. The standard approach intensities assume they are equal levels spots. literature, morphological opening suggested one best methods for estimating this way.
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Stephanie Weiss, Choosing Components for a Microarray Scanner ,(2002)
Gordon K. Smyth, Yee Hwa Yang, Terry Speed, Statistical Issues in cDNA Microarray Data Analysis Functional Genomics. ,vol. 224, pp. 111- 136 ,(2003) , 10.1385/1-59259-364-X:111
Henrik Bengtsson, Göran Jönsson, Johan Vallon-Christersson, Calibration and assessment of channel-specific biases in microarray data with extended dynamical range BMC Bioinformatics. ,vol. 5, pp. 177- 177 ,(2004) , 10.1186/1471-2105-5-177
Henrik Bengtsson, Ola Hössjer, Methodological study of affine transformations of gene expression data with proposed robust non-parametric multi-dimensional normalization method BMC Bioinformatics. ,vol. 7, pp. 100- 100 ,(2006) , 10.1186/1471-2105-7-100
Pierre Soille, On morphological operators based on rank filters Pattern Recognition. ,vol. 35, pp. 527- 535 ,(2002) , 10.1016/S0031-3203(01)00047-4
Yee Hwa Yang, Michael J Buckley, Sandrine Dudoit, Terence P Speed, Comparison of Methods for Image Analysis on cDNA Microarray Data Journal of Computational and Graphical Statistics. ,vol. 11, pp. 108- 136 ,(2002) , 10.1198/106186002317375640
Elvezio M. Ronchetti, Peter J. Rousseeuw, Werner A. Stahel, Frank R. Hampel, Robust statistics: the approach based on influence functions ,(1986)
Xiangqin Cui, M. Kathleen Kerr, Gary A. Churchill, Transformations for cDNA Microarray Data Statistical Applications in Genetics and Molecular Biology. ,vol. 2, pp. 1- 22 ,(2003) , 10.2202/1544-6115.1009
H.J.A.M. Heijmans, Composing morphological filters IEEE Transactions on Image Processing. ,vol. 6, pp. 713- 723 ,(1997) , 10.1109/83.568928
David M. Rocke, Blythe Durbin, A model for measurement error for gene expression arrays. Journal of Computational Biology. ,vol. 8, pp. 557- 569 ,(2001) , 10.1089/106652701753307485