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The microarray measurements were compared with quantitative real-time-polymerase chain reaction (QRT-PCR) results for 23 genes, and the varying degrees of agreement for each platform were characterized.
Microarray measurements were confirmed with real-time quantitative polymerase chain reaction (qPCR).
In total, 180 microarray measurements were performed.
Data set 3 is provided in Additional file 1. Microarray measurements were performed as described in [ 18, 19].
Gene expression microarray measurements were performed using the GeneChip PrimeView Human Gene Expression Array that contains 49,395 probes and measures 36,000 transcripts and variants per sample.
Note however, that in these approaches, the precise environmental conditions under which the microarray measurements were taken are not included in the model.
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An important use of data obtained from microarray measurements is the classification of tumor types with respect to genes that are either up or down regulated in specific cancer types.
As microarray measurements are noisy, reproducibility of such measurements deserves a careful attention.
However, microarray measurements are far from the exact values of the expression levels.
Typically, microarray measurements are given for 'probes' (that encode possibly multiple genes).
Since microarray measurements are the net expression of all cells in the sample, the data is generally per total cells.
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