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Array quality was analyzed using the affyPLM package [58].
Array quality was monitored using the Agilent QC Tool (v1.0) with the metric set GE2_QCMT_Feb07.
Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
An array quality control assessment of sample reproducibility by pairwise PCC calculations excluded the presence of outliers among experimental replicates.
The QLT can furthermore be used as a visualization tool to inspect array quality and effects of background compensation.
Mean array quality control metrics were assessed for all 64 vascular endothelial biopsy samples hybridised to GeneChips.
Standard array quality measures indicated high quality hybridization and all samples were taken forward for further analysis.
The signal to noise ratio of the array served as a measure of array quality and was the major target for optimization.
Array quality was measured by a series of parameters which are usually provided by the core facility to confirm that the arrays had been properly hybridized.
During the data preprocessing, M vs A plots, before and after normalization, and side-by-side boxplots for all arrays are used to assess array quality.
PN performed array quality metrics analysis.
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