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The amount of BRCA1 protein and the amount of BRCA1-ligated to BARD1 were expressed as a percentage of their respective median expression values measured in the whole group.
Successfully identified transcripts were found to be expressed across all tissues (Additional file 7), and the median expression values varied from 82.4 FPKM for myD88 to 5576.7 FPKM for Toll.
The user defines two thresholds as a ratio of median expression values, 'over' and 'under', for which probesets are called over- and under-expressed.
g, PFS of ovarian carcinoma patients with BRCA2 mutation based on above or below median expression values of DYNLL1 (DYNLL1-high n = 14, DYNLL1-low n = 18; source: ovarian cancer, TCGA dataset24).
Median expression values for each tag were calculated.
Median expression values were used for redundant probe sets.
Median expression values for the three intensity values were calculated, disregarding values exceeding 3.5-fold difference from the median.
Using the median expression values for miR-34c and miR-422b as respective cutoffs, high grade serous carcinomas were separated into high-expression group (expression values > median value) and low-expression group (expression values ≤ median value) for Kaplan-Meier survival analysis (Figure 4).
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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).
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