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The DNA microarray process was performed according to the Illumina Whole-Genome Gene Expression direct hybridization assay protocols (Illumina Inc) at The Centre of Applied Genomics (Toronto, ON, Canada).
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The microarray data analysis process was performed following the protocol described previously (11).
Database URL: http://sigreannot-mart.toulouse.inra.fr/ The main step of the microarray creation process is the probe design.
The microarray slides that survived this process were used in subsequent statistical analyses.
The act of scanning the array has received the least attention of all parts of the microarray process, despite it being a critical quality‐limiting component.
The Agilent microarray expression data (raw and processed) are available from GEO (Series Accession GSE29964).
For TSA treated and nontreated samples microarray analysis was processed in the Microarray Shared Research Facility at MSSM.
Microarray data was processed and normalized using the limma Bioconductor package [49], [50].
The microarray data was processed as previously described [ 27].
All microarray data was processed with Microarray Analysis Suite 5.0 software (MASv5.0).
Microarray data was processed from raw data image files with Feature Extraction Software 9.5.3.1 (Agilent Technologies).
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