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All microarray procedures were done at our microarray facilities.
The same basic microarray procedures were used in both species (see Methods).
Microarray procedures were performed at the Core Laboratory Facility (CLF) of the Virginia Bioinformatics Institute.
RNA isolation, amplification, and microarray procedures were previously described (Klebes et al. 2002, 2005; Klebes and Kornberg 2008).
The patient and tumour characteristics are shown in table 1. Microarray procedures were similar to our pilot study [ 2].
All microarray procedures were done at our microarray core facility [ 55]. cDNA microarrays were designed and prepared as described [ 56].
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A more limited series of confirmatory relative gene expression experiments, focused specifically on those genes identified as being significantly up- or downregulated using the microarray procedure, were also performed.
A one-way ANOVA and SAM (Significant Analysis of Microarrays) procedures were applied to look for time-, strand-, and CM-R/CM-S-specific variation in gene expression in the full data set.
Microarray Procedure was compliant with MIAME.
The microarray procedure was carried out as described previously.
All of the microarray procedure was MIAME (Minimum Information About a Microarray Experiment) compliant.
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