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To account for the different sequencing depths, a median normalization procedure similar to DESeq is used as the default method [ 5].
Raw data were initially normalized to expression of three synthetic oligonucleotides matching the sequences of Caenorhabditis elegans miRNAs: cel-miR-39, cel-miR-54, cel-miR-238 using median normalization procedure as it was previously described [ 30, 31].
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Including median or 5'-end intensities into normalization procedure will increase the systematic noise for those transcripts exhibiting negative correlation to RNA quality.
Microarray data were normalized using median normalization method.
Expressed data were normalized using median normalization.
The expression data were normalized using median normalization.
Data were normalized using median normalization across the array.
This normalization procedure uses the library median of the ratios between the read count and the geometric mean of each gene as a scaling factor for each library.
The ratio of Cy5/Cy3 intensities of each gene was normalized using the median of these 1500 genes selected for the normalization procedure.
Expressed data were normalized using the Median normalization.
Chips were normalized with the quantile normalization procedure.
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