A stepwise framework for the normalization of array CGH data |
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Authors: | Email author" target="_blank">Mehrnoush?KhojastehEmail author Wan?L?Lam Rabab?K?Ward Calum?MacAulay |
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Institution: | (1) British Columbia Cancer Research Centre, Vancouver, BC, Canada;(2) Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, BC, Canada |
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Abstract: | Background In two-channel competitive genomic hybridization microarray experiments, the ratio of the two fluorescent signal intensities
at each spot on the microarray is commonly used to infer the relative amounts of the test and reference sample DNA levels.
This ratio may be influenced by systematic measurement effects from non-biological sources that can introduce biases in the
estimated ratios. These biases should be removed before drawing conclusions about the relative levels of DNA. The performance
of existing gene expression microarray normalization strategies has not been evaluated for removing systematic biases encountered
in array-based comparative genomic hybridization (CGH), which aims to detect single copy gains and losses typically in samples
with heterogeneous cell populations resulting in only slight shifts in signal ratios. The purpose of this work is to establish
a framework for correcting the systematic sources of variation in high density CGH array images, while maintaining the true
biological variations. |
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Keywords: | |
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