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Genes that were not on the array, or were not expressed in mock transduced cells (i.e. low intensity spots on the array) were omitted.
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A small number of poorly behaved arrays were omitted.
Because we were unable to resolve the problems with Mouse3484 and Mouse3503 in kidney, these two arrays were omitted from later analyses.
It should be noted that the probes unique to the Gene Array that were omitted may provide informative expression data.
The microarray data were pre-processed and demonstrated two abnormal arrays that were omitted for further analysis (Additional file 3: Figure S1B).
Probe-set level data identified as array outliers by dChip were omitted and considered missing data in subsequent analyses.
Probes with an absent or marginal call in more than 90% of samples were omitted as were array tags linked to multiple genes, and only the highest SAM ranked probe for a gene was included.
Of the 40642 sequences submitted, 596 were omitted from the array as suitable probes could not be identified.
Background correction and normalization were omitted because the arrays were hybridized using different labeling assays.
Quantile normalization was used for between array-normalization. Genes corresponding to rows with blanks were omitted.
Characters' names were omitted.
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