Evaluation of Gene-Finding Programs on Mammalian Sequences

Table 7.

Phylogenetic Specificity

Programs Trained on Nucleotide accuracy-AC Exon accuracy−(ESn+ESp)/2
human murine human murine
FGENES human 0.85 0.82 0.67 0.68
GeneMark.hmm human 0.83 0.84 0.56 0.51
Genie human 0.88 0.89 0.73 0.67
Genscan human 0.89 0.92 0.72 0.70
HMMgene human 0.90 0.92 0.74 0.79
Morgan vertebrate 0.64 0.75 0.43 0.44
MZEF human 0.65 0.66 0.59 0.58

  • The HMR195 dataset was split into two species subsets containing 103 human and 92 murine sequences. For each subset and each program, AC and (ESn+ESp)/2 were averaged over all sequences belonging to the particular subset.

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  1. Genome Res. 11: 817-832

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