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Using a more reflective score of correlation, R i, which for the i-th run is the average correlation among the biological replicates within a group, the rMd-PAV identified runs would not have been removed from the dataset as the median correlation is 0.88 ranging from 0.73 to 0.85 across the identified outlier runs.
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The average correlation is weakly positive, 0.36 (the median correlation being 0.34).
The median correlation was −0.25 for D2 and −0.23 for D3.
Median correlation was −0.13 for scenario 2, D5, whereas for scenario 1, almost no correlation in the EBEs was found.
Specifically, the mean correlation between two non-matched samples was 0.004 ± 0.20 (mean ± S.D). and the median correlation was -0.007.
In these, Spearman correlation was computed across all genes within each patient separately, the median correlation was 0.73 with a P value <1E-16.
Using this approach, all PC between a transcript and its respective protein became greater than 0.51 and the median correlation was good with a value of 0.84.
Even with only one normal profile, the ISOpure median correlation was still higher than that of the Clarke method on both the lung (Spearman ρISOpure = 0.45, ρClarke = 0.35) and the prostate (Spearman ρISOpure = 0.38, ρClarke = 0.19) datasets.
Median correlations were slightly higher in the US sample than the German sample (0.49 and 0.58 vs 0.42 and 0.44 for Smoking Symptoms and Smoking Impact, respectively) (Table 3).
Since no statistically significant time dependence was observed, the median correlation coefficient was regarded as representative for the association found for the entire study period (Table 3).
The Spearman rank correlation between the RRTs as calculated by the mean, and by the median, is 0.97, while the Kendall Tau correlation is 0.89.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com