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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.
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BMC Genomics

ISSN: 1471-2164

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