Gene ontology (GO) term enrichment analysis showed that genes related to cell cycle (P = 9.85E−09), development (P = 1.2E−06), cell differentiation (P = 1.36E−06), cell proliferation (P = 2.53E−07), and lipid metabolism (P = 9.43E−04) are overrepresented in our dataset (ratios >twofold, Table 1).
Although the ratios were nearly constant in the claims dataset, the ratio increased over time in the FAERS dataset; that is, the monthly AE rate for the branded levetiracetam product, was on average almost 10 times that of the generic products toward the end of the study period.
For the cell line dataset, direct ratio measurements between co-hybridized sample pairs were compared with in silico reconstructed ratios of the two intensity measurements of the same sample pair, as measured on separate arrays, and against different samples.
In our dataset, the ratio of nonsynonymous-synonymous positions in the coding region was about 1∶2.02 (Figure 2); this ratio fits very well with the proportion of 1∶1.97 that was obtained previously [53] in a survey of >5100 entire genomes (see caveats in [56]).
Based on the LOWESS regression of this large comparison dataset, 3′:5′ ratio threshold criteria equivalent to RIN cut-off values can be proposed for the selection of RNA samples for RT-qPCR analyses.
In our dataset, the ratio between the intensity of the bands at 1430 and 900 cm−1 for the initial cellulose, the hydrolyzed cellulose, and the sonicated cellulose was 1.74, 1.82, and 1.86, respectively.
In this dataset, the ratio of damaging to neutral mutations was 6 1.
For each dataset, likelihood ratio tests (LRT) for detection of positive selection were examined using M7-M8 and M8a-M8 comparisons.
In contrast, this was not observed in the peripheral tissue dataset (odds ratio for peripheral tissues ORP = 1.02, P = 0.13).
To evaluate the quality of the dataset, the ratio of the gap length to the length of the assembled unigenes was analysed.
Applying this approach to the kinase-specific dataset, the ratio of observed to expected duplications was plotted as a bi-directional box-plot.
