April 2016
Beginner to intermediate
1036 pages
33h 39m
English
book
Statistics and Data Analysis for Microarrays Using R and Bioconductor, 2nd Edition
by Sorin Draghici
Content preview from Statistics and Data Analysis for Microarrays Using R and Bioconductor, 2nd Edition
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Data preprocessing and n ormalization 701
20.2.3.3 Using control spots/genes
This involves modifying the values of each channel/experiment such that cer-
tain control spots/genes in both experiments have the same or similar values.
The control spots sho uld span the whole intensity range. If the intensity o f a
control gene on array A is found to be c times higher than the intensity of
the same co ntrol gene on array B, all genes with intensity values in the same
range on array A should be divided by c in order to make them comparable
with the values re ad from array B.
20.2.3.4 Iterative linear regression
This approach was proposed in the context of normalizing the two channels
of a cDNA array [19]. However, the method can be used to align any two
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