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To address this question, we randomly selected sets of ten genes with low or high noise, tissue variability, and median expression, and compared the intergenic and gene sequence lengths in the low and high sets.
The expression value for each TF was normalized in a tissue-specific fashion by subtracting the median expression and dividing the result by the Median Absolute Deviation MADD) statistic.
Differences in median expression and methylation levels were analysed by the Mann–Whitney U-test.
This metric was used to divide patients into high or low IGFBP2 by median expression, and their survival or recurrence-free survival was compared.
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After that, these summary values were converted to log-ratios, namely, negative values indicate below-median expression and positive value indicates above-median expression.
Herein, UCSC presents the exon-array data as log-ratios with positive values and negative values indicating above-median expression and below-median expression, respectively.
For the analyses of the combined expression levels of the markers, the patients were divided into four categories as follows: all enzymes below-median expression ('all-low'), one enzyme above-median expression, two enzymes above-median expression and all three enzymes above-median expression ('all-high').
The cut-off values used to classify AR expression were different among previous studies; however, the mean and median expression percentage and range detected in the current study are similar to those described in Peters' study [ 1].
Table 1 shows the median expression levels and interquartile ranges of DC-SCRIPT transcripts and relation with patient and tumor characteristics for these 1,505 patients who were evaluable for prognosis.
The thick line inside the box plot indicates the median expression levels and the box shows the 25th and 75th percentiles, while the whiskers show the maximum and minimum values.
The median expression level and the total expression level are shown as a line and whisker, respectively.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com