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These datasets provide the normalized log2 ratio of tumor and normal expression.
Average normalized log2 expression intensity values were exported for each exon or custom range with ArrayStar 3.0 (DNASTAR Inc).
Normalized log2 signal intensities were obtained after background subtraction and quantile normalization, as previously described by Buffa et al. [ 23].
Numeric values indicate average of normalized log2 intensity of microarray data.
miRNAs were considered expressed if their normalized log2 intensity was ≥2.
The data is expressed as the normalized log2 transformed Hy3/Hy5 ratio.
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Visualizing the normalized log2-ratios as density plots and quantile-quantile plots showed an approximately normal distribution with an average of 0.012 and a standard deviation of 0.315.
A linear model was fitted to the normalized log2-expression values for each probe.
The normalized log2-file was analyzed with the Significance Analysis of Microarray (SAM) in R (http://www-stat.stanford.edu/~tibs/SAM/).edu/~tibs/SAM/
We used normalized log2 intensity) for single-channel platforms and log2 ratio) in dual-channel platforms.
The result sheets from GenomeStudio were loaded to R, normalized, log2-transformed and background corrected.
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