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Segments were called gains or losses if their mean value exceeded 1.5 standard deviations from the mean probe value.
This is a modeling strategy that converts the perfect match probe value into an expression value for each gene.
For each input array, for each probe expression value, the array ith percentile probe value was replaced with the average of all array ith percentile points.
No normalization was used in clustering, but for visualization purposes, the intensities were median-centered so that green represents values below the median probe value and red above.
However, to ensure the robustness of our results, we have repeated our analysis by also using both the maximum probe value and selecting one probe set at random given a choice of multiple probe sets.
A relative probe value of <0.7 indicates a monosomy, whereas a relative probe value of >1.3 indicates a trisomy.
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The probe values can be used to control a user's data sending rate.
The network state, that is, the service rate of the bottleneck, can be estimated from the series of probe values using an estimator based on elementary fuzzy logic.
In all other cases, the probe values were retained.
Consequently, in almost all comparisons the median probe values differ by orders of magnitude and derive from raw probe values with no overlap.
The expression values for redundant Entrez Gene IDs were mapped by median probe values.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com