Table 4

Translation initiation site prediction performance of the new gene prediction algorithm (Neural Net) and MetaGene according to »reliable annotation subsets« (A subset of »verified genes« from »EcoGene« for Escherichia coli [28], all non-y genes of the Bacillus subtilis GenBank annotation and the »PseudoCAP« annotation of Pseudomonas aeruginosa [29]). TIS prediction sensitivity and correctness were measured on artificial 700 bp fragments that were randomly excised from each test genome to 5-fold coverage. Mean and standard deviation over 10 replicates per species are shown.

SENSITIVITY TIS

TIS CORRECTNESS

Species

Neural Net

MetaGene

Neural Net

MetaGene

Bacillus subtilis

73.4 ± 1.79

62.1 ± 1.43

84.1 ± 0.51

70.2 ± 0.64

Escherichia coli

80.0 ± 0.68

75.1 ± 0.61

86.6 ± 0.57

77.5 ± 0.67

Pseudomonas aeruginosa

68.0 ± 0.22

79.7 ± 0.44

80.7 ± 0.20

83.7 ± 0.36

Hoff et al. BMC Bioinformatics 2008 9:217   doi:10.1186/1471-2105-9-217