Skip to main content

Table 2 BLAST sequence homology search results within TC families in the three organisms

From: Transferring functional annotations of membrane transporters on the basis of sequence similarity and sequence motifs

  Ec- At Ec- Sc Sc- At
1e-20 1e-16 1e-12 1e-8 1e-4 1e-20 1e-16 1e-12 1e-8 1e-4 1e-20 1e-16 1e-12 1e-8 1e-4
Precision [%] 83.3 84.4 86.7 90.0 60.3 78.6 79.6 79.6 87.8 64.1 84.7 85.4 97.5 97.5 54.1
Recall [%] 83.3 84.4 86.7 90.0 76.2 78.6 79.6 79.6 87.8 65.1 84.7 85.4 97.5 97.5 62.9
F-measure[%] 83.3 84.4 86.7 90.0 64.7 78.6 79.6 79.6 87.8 63.6 84.7 85.4 97.5 97.5 55.2
Unclassified [%] 82.2 52.2 37.8 25.6 0.0 56.1 44.9 40.8 29.6 0.0 48.4 43.3 35.0 19.1 0.0
  1. Accuracy measures of the BLAST prediction results for finding homologous transporter pairs in the Ec-At, Ec-Sc, and Sc-At comparison that belong to the same TC family for various E-value thresholds. The results were normalized by the size of the reference database (see text). Both precision and recall have a peak at thresholds 1e-12 or 1e-8 but showed lower accuracies under other thresholds. The unclassified percentage decreases as the thresholds’ values increase.