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Table 1 Comparison of gene finder performance on yeast genomic sequence data

From: Novel insights into the unfolded protein response using Pichia pastoris specific DNA microarrays

Gene finder True positives Partly False positives False negatives Sensitivity (%) Positive prediction value (%)
Glimmer3 75 13 21 31 73.9 68.8
GlimmerHMM 1 3 68(234) 115 3.2 1.4
GeneMark 81 16 32 22 81.5 62.7
  1. Three different gene finders were tested on the genome sequence of S. cerevisiae chromosome 1 to evaluate the quality of gene prediction. Sensitivity = TP/(TP + FN), positive prediction value = TP/(TP + FP); For Glimmer HMM the column False Positives contains the number of genes and in brackets the number of exons.