Exact(4)
The HSF bound segments identified in our analysis span several oligonuclotide probes from the tiling array and average 1400 bp in length.
Hierarchical clustering was carried out in Cluster analysis using Spearman correlation, median centering by gene and array, and average linkage association [ 18].
with a range of 13.5-27.7% per individual array and average values of 17.2% and 26.4% lighted spots at 3 and 48 hours, respectively.
Overall, the composite array and average qPCR values resulted in a correlation of 0.686 (Spearman's Rho, p<0.0001, n=84), while the individual array and qPCR values resulted in a slightly lower correlation of 0.607 (Spearman's Rho, p<0.0001, n=244).
Similar(56)
In a second step, all signal intensity ratios were normalized to the ratios obtained from the equimolar subpool-0 of each array and averaged for every dilution factor.
MIC ratios were separately obtained for each scaffold for each of the three MIC DNA-hybridized arrays and averaged, as described in Methods; the same was done for the two MAC DNA-hybridized arrays.
Z scores were then calculated for each array, and the average z score for each probe across the three replicates was used for subsequent analysis.
Signal probe medians and standard deviations were imported into the SPSS software, and normalization was achieved by correcting each probe median based on the ratio between the median of the array and the average median of arrays.
Values for each gene were obtained for each array in duplicate (inherent to array design) and averaged.
Each Mock microarray was normalized relative to the average of all the other Mock arrays, and the average of all the other Mock arrays was then subtracted from it.
Cluster processed the data by selecting both genes and arrays and creating average linkage.
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