Sentence examples for method and genes from inspiring English sources
[27] Missing (software flagged features) values were imputed by the K-nearest neighbor method, and genes associated with tumors vs. normal were determined with the PAM algorithm, using the pamr Bioconductor package.
This revealed that there is an overlap between the gene set selected by the proposed method and genes which are predicted as marker gene for DLBCL or colon cancer in other articles.
Gene expression values were normalised using the rank invariant method, and genes that had a detection level of more than 0·99 in either the control or treatment samples were considered significantly detected.
Each gene tree search was bootstrapped (500 pseudoreplicates) with PhyML using the nearest-neighbor interchange branch-swapping method, and genes supporting strongly conflicting bipartitions were considered LGTs and removed from the analysis.
Gene expression values were normalised using the rank invariant method and genes which had Detection Levels of more than 0.99 in either the control or treatment samples were considered significantly detected.
The P values were computed based on the Chi-square statistic adjusted by the FDR method and genes with adjusted P value less than 0.05 were treated as candidates for positive selection.
Phylogenetic profiles method, gene neighbors method and gene fusions method were adopted to construct the genome context networks [41].
Relative expression was determined using the ΔΔCT method, and gene expression values were normalized against the expression of GAPDH.
Relative expression was determined using the ΔΔ CT method, and gene expression values were normalized to the expression of the GAPDH reference gene.
Several R packages for identifying DEGs are currently available, and each package uses its own normalization method and gene ranking algorithm.
Some R packages exist for comparing two groups of samples [ 17, 18, 20, 21], and each package uses its own normalization method and gene ranking algorithm.
