cDNA Microarray Data Normalization
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Normalization of cDNA microarray data.
Normalization means to adjust microarray data for effects which arise from variation in the technology rather than from biological differences between the RNA samples or between the printed probes. This paper describes normalization methods based on the fact that dye balance typically varies with spot intensity and with spatial position on the array. Print-tip loess normalization provides a wel...
full textNew Normalization Methods for CDNA Microarray Data
MOTIVATION The focus of this paper is on two new normalization methods for cDNA microarrays. After the image analysis has been performed on a microarray and before differentially expressed genes can be detected, some form of normalization must be applied to the microarrays. Normalization removes biases towards one or other of the fluorescent dyes used to label each mRNA sample allowing for prop...
full textIdentification and Normalization of Plate Effects in Cdna Microarray Data
Introducing a new way of visualizing cDNA microarray data we have identified a new type of systematic variation, which we refer to as plate effects. We believe that plate effects are due to non-biological differences in the cDNA clones products spotted onto the microarray slides. By comparing the consistency of all replicates (both within and between slides) after performing 42 different normal...
full textNormalization of cDNA Microarray Data By Using Neural Networks
In microarray experiments, there are a variety of systematic errors to affect the measured gene expression levels. Although a number of algorithms were proposed for the normalization of different type of cDNA microarray data, they have encountered many difficulties due to the complex nonlinear sources of systematic error. In this case, a nonlinear normalization method is of great potential to d...
full textNormalization of Microarray Data
DNA microarrays are a powerful technology for analysis of gene expression levels within cells. Both the cDNA and oligonucleotide technologies for microarrays are fairly young and are prone to a broad collection of errors and inaccuracies [KYML02]. In this paper we briefly discuss some sources of error and detail a variety of methods for normalizing the data with respect to some of these error s...
full textA new outlier removal approach for cDNA microarray normalization.
Normalization is a critical step in the analysis of microarray gene expression data. For dual-labeled array, traditional normalization methods assume that the majority of genes are non-differentially expressed and that the number of overexpressed genes approximately equals the number of under-expressed genes. However, these assumptions are inappropriate in some particular conditions. Differenti...
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Journal title
volume 3 issue 1
pages 55- 63
publication date 2005-01-01
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