Exact(3)
Each seed s∈ S is labeled by the number rank(s) of incompatibility statements that it has been shown to resolve in succession, starting from the beginning of the list L. Initially, the three parts of the first incompatibility statement are chosen as seeds, and we set rank(s)=1 for each such seed s.
The consecutive sampling program (see Methods) takes k pairs of expression values Y 1i and Y 2i ranked according to the mean (Y 1i, Y 2i ) and calculates the standard deviation from the difference Y 2i -Y 1i, where the subscripts 1 and 2 denote the array number and i signifies the probe set rank; typically we set k = 12, 25 or 50, depending on the size of the array.
Diocletian then created a bureaucratic apparatus that was similar to the system that Hadrian had created, wherein each office had a defined set of responsibilities, a set rank, and a set path of promotion.
Similar(57)
Set rank-searching-set K-SCOPE. 3.
Although PEBP (CBFb) was only marginally enriched (p∼0.1) in this list, it appeared among the ten top TFBSs exhibiting the lowest p-values both in the lists derived by DEMON from consensus data sets (ranked 2nd and 3rd) and from the hIPCs vs. PANC-1 cells experiment data set (ranked 6th).
When top ranked gene sets from both methods, based on FDR for association and the AUC value for ROC-based classification, were combined by averaging the top gene set ranks, there was a significant overlap between the gene sets ranked by both methods (Spearman rank correlation over all gene sets = 0.96, p-value < 10-16 ; Additional File 6).
The output of the pipeline consists of a non-redundant ranking of GO BP terms overrepresented in the input set, ranked according to their Bonferroni-corrected p-values.
We applied a cut-off for normalized gene set ranks of 0.1 for negatively enriched gene sets and of 0.9 for positively enriched gene sets.
The gene sets of the Balko, and Chen but not of the Larsen signature showed statistically significant enrichment at the top of data set ranked by survival.
The high and low gene expression groups were identified by considering the top and bottom 10% of genes in the data set ranked by expression level (percentile method).
The CTD-based gene sets ranked consistently and considerably higher than the next-gen TM-based gene sets over all GSA tools, with one exception: the next-gen TM-based ZnSO4 gene set ranked higher on the ZnSO4 gene expression data set using ToxProfiler (Table 1).
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