These reports include confidence intervals of the mean difference, the paired sample t-test, and non-parametric tests including the randomization test, the quantile (sign) test, and the Wilcoxon Signed-Rank test. Tests of assumptions and distribution plots are also available in this procedure. ...
After quantile normalization, we removed the probes with detecting p-values > 0.05 in all of the samples. The average of signal (AVG_signal) of each probe was calculated from duplication of expression data. Differentially expressed genes were identified as having a ≥1.25-fold change in ...
We found that target mRNAs that had the most negative correlations coefficients (lower 20th quantile) with the miRNA tended to be more downregulated in the transfection experiment than mRNAs with higher correlation coefficients (upper 20th quantile) (Fig. 2G). Thus, the transfection experiments are...
The Affymetrix gene probes were log transformed and normalized using the RMA package with quantile normalization, median polish and a custom cdf mapping from oligoprobes to gene yielding 12,023 gene probes (see Additional file 1 for details on genechip normalization and symptom symptom score ...
first_qu = quantile(gain, 0.25), median = median(gain), mean = mean(gain), third_qu = quantile(gain, 0.75), max = max(gain), sd = sd(gain)) ## # A tibble: 2 × 8 ## hormone min first_qu median mean third_qu max sd ...
The microenvironment of lymph node metastasized tumors (LNMT) determines tumor progression and response to therapy, but a systematic study of LNMT is lacking. Here, we generate single-cell maps of primary tumors (PTs) and paired LNMTs in 8 breast cancer