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The enzyme route candidates are quantitatively analyzed by the prioritization method and the resulting top 10 pathways are shown in Table 2.
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The prioritization method was developed by an independent group to avoid any bias that could result from the influence of stakeholders as reported (25, 26 ).
Those genes within the artificial locus for which spatial brain expression data was available were considered as candidate genes (simulating an 'orphan' locus obtained by linkage analysis or comparable techniques), and the prioritization method was applied as described above.
More specifically, since the performance of the prioritization method is only slightly affected by κ when it is relatively small, we can roughly select a κ value to obtain near optimal performance.
Regarding the prioritization method, the modified fuzzy Logarithmic Least Squares Method (LLSM) is applied to derive the importance weight vectors.
Then the prioritization method based on quantitative analysis has been performed to identify which enzymes would be more promising for the desired novel pathway; the prioritization method is explained in Prioritization.
By introducing a set of concepts regarding the linguistic variables and linguistic pairwise comparison matrices (LPCMs), and by defining the deviation measures of LPCMs, we present two performance measure algorithms to evaluate the numerical scales and the prioritization methods.
However, it is necessary to show whether the prioritization methods are sensitive to these parameters.
For each column the best average AUC results achieved by the gene prioritization methods are highlighted in bold.
The validity of the binary prioritization method was assessed by investigating the protein-protein interactions, functional enrichment and common promoter element binding sites of the top-ranked genes.
Web based framework supported by requirement prioritization method that considers the preferences of multiple stakeholders, was proposed in [5].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com