Similar(60)
Assuming proper normalization by variance, σ 2 = 1 seems to produce the best result.
Normalization and variance stabilizing transformations (VST) were performed before further analysis.
After normalization and variance stabilization, the average signal value of replicates for each probe set was used for analysis.
Across all SCN inoculated samples, transcript counts underwent normalization and variance estimation using the DESeq R package.
The normalization adds variance to the estimates of the branch length and, hence, it was necessary to remove some extreme outliers that obscure the bulk of the distribution.
After normalization and variance stabilization, the average signal value of two biological replicates for each sample, except for samples 2, 3, 14, 15 and 16 (three biological replicates and two technical replicates) was used for analysis.
To remove certain systematic biases from the microarray, the raw Affymetrix data (.cel files) were normalized with the GCRMA (GC content – Robust Multi-Array Average) algorithm (ver. 2.2.0) including quantile normalization and variance stabilisation [ 63], using the affy package of the bioconductor software [ 64].
Our main focus here is to use relevant experimental data from clinical samples, such as the study by Tissing et al. [ 15], where the investigators used the same drug on retrieved tissues from childhood leukemia patients, not cell cultures, but used a different normalization process, variance stabilization procedure (VSN), than of our study.
Microarray data were normalized by robust spline normalization after variance-stabilizing transformation.
Data were normalized by robust spline normalization after variance-stabilizing transformation provided by the lumi package [ 35, 36].
The data was normalized by variance stabilization normalization [ 68].
Write better and faster with AI suggestions while staying true to your unique style.
Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com