Table 3

Comparison of pairwise and multiple species GeneMapper

Program

Nucleotide

Exon

Gene

Sensitivity

Specificity

Sensitivity

Sensitivity

Specificity

Sensitivity

Pair-wise GeneMapper

99.95

99.93

91.3

95.1

52.2

52.2

Multiple species GeneMapper

99.95

99.93

91.5

95.2

52.6

52.6

The Table summarizes the effect of additional species on the performance of GeneMapper. To test pair-wise GeneMapper, only the human annotation was used to predict the gene structure in the chicken sequence. To test the profile based approach, additional orthologous sequences from the chimpanzee, mouse, and rat genomes were used to create a profile for each gene. The profiles were then employed to predict genes in the chicken sequences. The Table compares the accuracy in predicting the gene structure in the chicken sequences.

Chatterji and Pachter Genome Biology 2006 7:R29   doi:10.1186/gb-2006-7-4-r29