Table 2 Stringent accuracy of specificity prediction.
From: Comparison of phylogenetic trees through alignment of embedded evolutionary distances
Protein Family Name | size | correlation | MATRIX | MORPH | gCEED |
|---|---|---|---|---|---|
GyrA/B, ParC/E (α-proteobacteria) | 20 | 0.9932 | 50.0 | 50.0 | 50.0 |
ParC/ParE (α-proteobacteria) | 12 | 0.9921 | 50.0 | 66.7 | 66.7 |
Lyt-type regulator/sensors (E. coli/B. subtilis) | 4 | 0.9709 | 50.0 | 50.0 | 50.0 |
GyrA/GyrB (Gram positive bacteria) | 18 | 0.9795 | 33.3 | 44.4 | 55.5 |
Acetyl CoA carboxylase α/β (proteobacteria) | 16 | 0.9756 | 75.0 | 75.0 | 62.5 |
ParC/ParE (bacteria) | 26 | 0.9757 | 46.2 | 38.5 | 61.5 |
GyrA/GyrB (α-proteobacteria) | 20 | 0.9723 | 90.0 | 80.0 | 50.0 |
ParC/ParE (Gram positive bacteria) | 14 | 0.9634 | 14.3 | 28.6 | 28.6 |
CheA/CheB (bacteria) | 8 | 0.9712 | 100.0 | 100.0 | 75.0 |
Pyruvate dehydrogenase α/β (bacteria) | 17 | 0.9599 | 64.7 | 70.6 | 35.3 |
GyrA/B, ParC/E (Gram positive bacteria) | 28 | 0.9484 | 10.7 | 7.1 | 10.7 |
DNA polymerase III E2/E3 (bacteria) | 20 | 0.9378 | 20.0 | 40.0 | 70.0 |
Succinate CoA synthetase α/β (archaea) | 13 | 0.9182 | 7.7 | 30.8 | 23.1 |
Ntr-type regulator/sensors (8 bacteria) | 14 | 0.9025 | 28.6 | 42.9 | 21.4 |
Succinate CoA synthetase α/β (proteobacteria) | 22 | 0.8959 | 54.6 | 50.0 | 54.5 |
Omp-type regulator/sensors (5 bacteria) | 16 | 0.9307 | 0.0 | 68.8 | 31.3 |
CCR-type chemokine/receptor (mouse/human) | 6 | 0.8790 | 66.7 | 66.7 | 33.3 |
Acetyl CoA carboxylase α/β (Gram positive bacteria) | 9 | 0.8818 | 55.6 | 55.6 | 77.8 |
Chemokine/receptor (mouse/human/rat) | 31 | 0.8789 | 19.4 | 16.1 | 3.2 |
CKR-type chemokine/receptor (mouse/human/rat) | 18 | 0.8511 | 22.2 | 0.0 | 11.1 |
CheA/CheY (11 bacteria) | 13 | 0.8370 | 23.1 | 15.4 | 23.1 |
Nar-type regulator/sensors (8 bacteria) | 22 | 0.8488 | 18.2 | 9.1 | 13.6 |
GyrA/GyrB (archaea) | 10 | 0.7948 | 20.0 | 20.0 | 10.0 |
Cit-type regulator/sensors (E. coli/B. subtilis) | 5 | 0.7497 | 60.0 | 60.0 | 60.0 |
ABC transporter membrane/binding protein (E. coli) | 17 | 0.4203 | 5.9 | 5.9 | 0.0 |
ABC transporter membrane protein 1/2 (E. coli) | 19 | 0.6219 | 0.0 | 10.5 | 10.5 |
ABC transporter membrane binding protein (H. influenzae) | 13 | 0.0427 | 15.4 | 23.1 | 7.7 |
Two-component sensor/regulators (E. coli) | 27 | 0.6028 | 14.8 | 14.8 | 11.1 |
Chemokine/receptor (human) | 13 | 0.5004 | 23.1 | 15.4 | 0.0 |
ABC transporter membrane protein 1/2 (H. influenzae) | 14 | 0.3916 | 21.4 | 21.4 | 21.4 |
Omp-type regulator/sensors (E. coli/B. subtilis) | 27 | 0.5314 | 7.4 | 33.3 | 3.7 |
Omp-type regulator/sensors (E. coli) | 14 | 0.4295 | 28.6 | 14.3 | 14.3 |
Omp-type regulator/sensors (B. subtilis) | 13 | 0.5628 | 15.4 | 7.7 | 15.4 |
Lyt, Ple, and other type regulator/sensors (8 bacteria) | 20 | 0.4899 | 5.0 | 20.0 | 30.0 |