Default normalizations were selected: (1) measurements less than 0.01 normalized intensity were set at 0.01; (2) each chip was normalized to the 50th percentile in comparison with other chips; (3) each gene was normalized by taking the ratio of the raw intensity of a probeset for a particular sample to the median intensity of the probe set calculated across all samples.
A total of 476 miRNAs had an average of less than 10 normalized reads per sample, indicating that expression was very low or nonexistent.
To account for some of the negative values that arise when there is less than one normalized citation, the resulting index is increased by one point.
miR395, miR397, miR398, miR399 and miR408 represented by less than 10 normalized reads were the miRNAs with least abundance in all 4 cucurbits (Additional file 1).
For 72% of those module pairs within the same second-order cluster, the average gene pairwise Pearson correlation between modules in the active datasets is less than 0.5 (normalized Percentage Bend correlation approximately < 0.35), and for 30% module pairs the cross-module average gene pairwise Pearson correlation is less than 0.3 (normalized Percentage Bend correlation approximately < 0.19).
Normalized for fat-free body mass, the gender differences in peak and maximal work rate in both performance tests were 50% less than when normalized for total body mass, but were nonetheless still statistically significant.
The goodness-of-fit was calculated, and if found to be less than 0.95 (normalized to 1) then the point was rejected, this helped reject false points caused by image artifacts and gave more robust results.
This lag of the tetanic contraction forces decreased over time, with the tetanic being 21%and13%3% less than the normalized twitch contraction forces at weeks 4 and 8 after crush injury (week 4: fast twitch 61% (SD 13) of the control side, tetany 40% (SD 12), p = 0.028; week 8: fast twitch 68% (SD 19) of the control side, tetany 55% (SD 13), p = 0.028).
If the value after normalization was less than 1, the normalized value was set as 1. cThe expression of miRNA was the sum of the total counts of unique reads which was within ±2 nt variations of the mature miRNA on the precursor.
