Sentence examples for mean probe summarization from inspiring English sources
The data was adjusted for GC content, normalized with quantile normalization and mean probe summarization by Robust Multichip Average (RMA) [ 43, 44], and expression fold change values were determined.
The raw CEL files were normalized using the RMA background correction with quantile normalization, log base 2 transformation and mean probe-set summarization with adjustment for GC content.
Normalized probe set expression intensities were obtained using robust multi-array average (RMA) for probe summarization and normalization of background-adjusted and log-transformed perfect match probe intensity values.
Robust multi-array average [ 26] summarization algorithm (with quantile normalization and median polish probe summarization procedures) and baseline transformation (that is, per gene normalization; baseline to median of all 12 samples) were run on data using a logarithmic scale.
The background estimation and the probe summarization were done on the raw data from each chipset separately according to the RMA algorithm [34].
The normalized probe scores were pre-processed with background correction, probe summarization, and filtering of invariant and non-expressed probe-sets.
A COA was performed after the probe summarization in order to visualize the structure of the expressional data (Figure 4).
Using signal values obtained from the MAS5 probe summarization algorithm, we identified 917 and 806 genes that were differentially expressed when Ap2δ or Ash2l, respectively, was downregulated.
The raw intensity data was obtained from the scanned arrays using the BeadStudio software version 1.4.02 (Illumina, San Diego, CA, USA), using the default probe summarization and background substraction methods.
Probe summarization and probe-set normalization were performed using Robust Multi-Chip Average (RMA), which included background correction, quantile normalization, log2-transformation and median polish probe set summarization.
