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The Ames mutagenicity assay produces a binary classification of mutagen/non mutagen of compounds for each test strain used; this allows an overall call to be made.
Once a prediction and a confidence level have been calculated for each of the relevant hypotheses we can construct an overall call based on these values.
Local prediction based on individual hypotheses are combined into an overall call based on a reasoning method that can be adapted to the use case (screening, lead optimisation, risk assessment, etc).. 1. Construct individual hypothesis predictions which will contribute to the overall call.
As a further quality control step, arrays with an overall call rate less than 98% were discarded from further analysis.
The sequence analysis software assigned calls to 698,059 of these bases for an overall call rate of 93.61% (Table 2).
Calls were assigned to 113,474 of the 120,280 tiled bases, yielding an overall call rate of 94.34% (Table 2).
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For patient 1, an overall call-to-therapy decision time of 35 minutes was achieved.
For patient 2, an overall call-to-therapy decision time of 33 minutes was reached.
Subjects with an overall call-rate <95% were excluded.
It indicates that in order to reduce the power loss caused by the equivocal observations, it would be more beneficial to call the equivocal observations with a genotyping error rate 2.5% than 'no-call' with an overall call-rate 97.5% (Fig. 4).
Our results showed that the SNP Array 6.0 platform reached the expected level reported by the manufacturer, with an average overall call rate of over 99.5% and an average concordance rate of over 99.8%.
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