The classified genes by both PCR and microarray were combined together to be used as the training data set for the NB model.
After filtering the intensities from the duplicated spots on the same microarray were combined into one value, the average of the two spots when available or the value of a single spot remaining after filtering.
The data for each cDNA from all 50 microarrays were combined into a profile that peaks in the slice, or slices, that contain mRNAs complementary to a given cDNA sequence represented on the microarray (Figure 2).
For statistical analysis and normalization, the data from all 32 microarrays were combined.
The histone deacetylation sites were inferred through specific histone acetylation microarrays [ 24], where chromatin immunoprecipitation and DNA microarrays are combined to determine the histone acetylation levels.
Expression values from microarrays were combined and divided into four classes, as absent, low (below the 25th percentile in a normalized distribution), intermediate (between the 25th and 75th percentile) and high (above the 75th percentile).
In order to reduce the effect of individual variability, thus promoting the identification of a robust gene expression signature of MDS-RARS, Significance Analysis of Microarrays (SAM) [ 40] was combined with a patient leave-one-out cross validation [ 41].
In the initial attempts to identify RNAs that are bound by specific RBPs, RNA immunoprecipitation was combined with microarray analysis (RIP-ChIP) [1,2].
Tissue metabolomics was combined with microarrays to bridge the gap between gene expression, metabolic and physiological responses, and to identify the composite effects of both fasting and insulin deprivation on chicken adipose tissue.
Three independent cultures were grown for isolating RNA as previously described; cDNA was prepared and microarray were performed for three independent biological replicates as described [ 25]. *.CEL files obtained from microarray hybridizations were combined with those in the ' E. coli CDS compendium' regularly maintained in J.J. Collins' lab [ 26].
