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The average expression value of a gene in multiple microarray replicates was used to represent the expression value of the gene under the treatment.
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The 3 experimental replicates were hybridized independently resulting in three microarray replicates per condition.
The time-course experiments were repeated several times to provide multiple biological replicates for microarray analysis.
Each dataset is composed of multiple technical replicates for several distinct microarray platforms (see Supplementary Table S1).
Because we employ multiple biological replicates (constructed singly) without technical replicates it is difficult to decompose variance attributable to microarray measurement and pooling construction.
While multiple hybridization replicates provided ∼97% accuracy, even a single replicate provided ∼95% accuracy.
Multiple analytical replicates can be created for one biological replicate.
Reproducibility in multiple biological replicates is not discussed.
These phenotypes were observed across multiple experimental replicates.
Thus, multiple biological replicates for nRIP are required.
Shown are representative images present in multiple biological replicates.
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