Sentence examples for in edgeR for testing from inspiring English sources

The model used in edgeR for testing differential gene expression was based on a negative binomial distribution.

Both statistical tests were performed in edgeR for detecting DEGs [ 95], which results were attached in Additional file 1.

Moderated log-counts-per-million (Additional file 6) were computed with the cpm function in edgeR for data visualization of RNAseq data.

Similar to edgeR, DESeq also uses read counts for testing differential gene expression analysis.

For the contrast "Ribo-Zero / poly(A)", the estimated log2 Fold Change for each gene was tested in edgeR using a Likelihood-Ratios (LR) test [ 39].

Read counts were normalized for sequencing depth using TMM normalization [ 112] and differential expression between sexes was tested with a modified exact test implemented in edgeR [ 113] and corrected for multiple testing.

We identified differentially expressed genes using edgeR v2.6 and tested for significant enrichment of up-regulated heterochromatin-embedded genes using binomial probability.

In the remaining ROIs, testing for differential methylation was performed using the edgeR package called via the MEDIPS package in R/Bioconductor.

For the Negative Binomial model, edgeR tests the null hypothesis, and DESeq separately for each gene.

The normalized number of reads (using the method implemented in edgeR) were inspected visually using boxplots in and tested for statistical differences using T-tests or two-sample Wilcoxon tests in R (version 2.15.2).

Significance was set at P < 0.05 and ± 1.4 log2 fold-change in gene expression based on mapped reads following normalisation and statistical testing in edgeR [ 24].