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Consequently, the isolated DNA employed for mutation scoring is mainly from hepatocytes, and not fibroblast contamination.
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At the end, the mutation score is calculated, given by the number of generated and dead mutants.
The mutation score is a value in the interval [0,1] that reflects the quality of the test set with respect to the produced mutants.
The mutation score is used only in the work of Henard et al. (2014), which implements the (1+1) Evolutionary Algorithm (EA) algorithm, and considers the operators defined in (Henard et al. 2013a).
The mutation score is used by the software to call a mutation and rank its confidence level.
Mutation score is similar to that of ROSETTA, as shown in Equation (1), which is to compute the similarity score between profiles.
Assuming the AA composition of triplet t is changed by the mutation, its contribution to the mutation score is ± w tQ t, where w t is the weight for the log-likelihood score Q t (Equation (1)).
Due to the nature of sequencing, however, peak heights may be quite variable so it is important that both directions are examined when the mutation score is used as an indication of the zygosity.
For each SM, the Mutation Score is calculated from the signal on the array and the underlying variability of that signal in a large reference of samples negative for that SM.
Analysing these 3 sample runs in isolation shows that while the Mutation Score is not high enough to exceed the "lower/high confidence" mutation score threshold and constitute a confident call, KRAS:p.G12D/V c.35G > A/T is the highest scoring SM in all three sample runs.
Afterwards, the means of the mutation scores are obtained and compared.
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