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T X) represents the set of tissues in which X is expressed above median expression value for that tissue.
Then we identified as expressed those genes with median expression value higher than the selected threshold.
Strikingly however, the LUAT-associated coding genes are expressed at high levels (median expression value 3.9 FPKM; Figure 1E).
The miRNA amounts were expressed in percentages relative to the median expression value of the whole group.
BRCA1 mRNA expression was expressed as a percentage of the median expression value measured in the whole group.
LUATs were found to be expressed at relatively low level with a median expression value of 0.8 fragments per kilobase per million fragments mapped or FPKM.
For the organ and tissue transcriptome data, the median expression value within each data set was subtracted for each probe.
We performed 75 percentile normalization with log2 transformation and the relative expression value (log2) was obtained by subtracting the median expression value within the data set for each probe.
Briefly, gene expression values are median centered, setting each gene's median expression value to zero.
MAS5-processed data were normalized using GeneSpring by setting measurements <0.01 to 0.01 and by normalizing per chip to the median expression value on the array and per gene to the median expression value across arrays.
Duplicate Genes: For multiple probesets mapping to the same gene, we retained the probeset with the maximum median expression value.
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