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Evaluating the performance of the retrained McPromoter
Table 5shows the results of the retrained system on the test set of promoters used in the Genome Annotation Assessment Project, which consists of 92 genes annotated with the help of full-length cDNAs in the Adh region [ 33].
By comparison with another predictor for Drosophila promoters, NNPP [ 11], the retrained McPromoter system has 10-15 times fewer false positives, but some of this improvement simply results from the larger training set and not from differences in the underlying algorithm.