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This indicates that the difference in expression ratios between platforms is not caused by low intensity values.
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The normalized dataset was further filtered by removing transcripts with low intensity values and low across-sample variances; thus, 29892 transcripts were reduced to 26903.
To maintain the signal structure of the low intensity values and prevent the appearance of such a peak for low intensity probes, each array distribution was set to an intensity floor of zero by implementing the Global background subtraction.
Spots that were flagged as having either low intensity values or low signal saturation were automatically discarded.
Microarray platforms may not accurately or precisely quantify genes with low intensity values [ 53, 54].
Cho and glucose were not protruding in the loadings, possibly due to low intensity values.
We define them as those local minima with both high surface scores and low intensity values.
Local maxima with low intensity values are likely a result of noise and are discarded.
Section A includes the pixels having the intensity values lies between lowest intensity values to half of mean value (M).
The highest and lowest intensity values were further used as upper and lower intensity threshold values.
In column 1 missing values were replaced with the lowest intensity value in experiment; in column 2 values to replace missing intensities were randomly chosen from the 15 lowest intensity values within a treatment group; in values to replace missing intensities were randomly chosen from the 30 lowest intensity values without regard to treatment group.
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