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Chips were normalized with the quantile normalization procedure.
Chips were normalized with Robust Microarray Analysis (RMA) in R using Bioconductor.
All array chips were normalized together, mitigating the effect of possible differences in cell viability.
All chips were normalized with the robust multichip analysis procedure [45].
Affymetrix HGU133+v2.0 chips were normalized with the Robust Multi-array Analysis (RMA) program [60] and annotated with the HGU133+v2 Bioconductor annotation packages.
Intensity values of all chips were normalized with dChip software (http://www.dchip.org) [37] and applying the model-based expression analysis algorithm (PM-only or PM/MM model) the expression values were calculated.
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For "per chip" normalization, all expression data on a chip were normalized to the 50th percentile of the measurements taken from all values on that chip.
For per chip normalization, all expression data on a chip were normalized to the 50th percentile of all values on that chip.
The data for each chip were normalized by assuming that the total intensity of all non-Ch5 genes remains the same.
The data in the gene chip were normalized by the Lowess method.
Using GeneSpring GX 7.3.1 software (Agilent Technologies, Santa Clara, CA), microarray data of each chip were normalized to the 50th percentile of the measurements on that chip.
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