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Table 1 Benchmarking scores of ortholog identification methods

From: Benchmarking ortholog identification methods using functional genomics data

Method Direct conservation of function Pairwise conservation of function Overall score
  Co-expression Equal InterPro accession number Conservation of co-expression Conservation of gene order Conservation of protein-protein interaction  
Hs-Mm       
BBH 1.28E+03 (3) 9.49E+03 (6) 2.59E+03 (4) 5.42E+03 (1) 3.18E+02 (1) 5.42E+16 (2)
INP 1.49E+03 (2) 1.13E+04 (5) 2.48E+03 (5) 4.26E+03 (3) 3.13E+02 (2) 5.57E+16 (1)
KOG 4.73E+02 (6) 1.60E+04 (2) 3.08E+03 (3) 1.42E+01 (6) 1.09E+00 (6) 3.61E+11 (6)
MCL 1.66E+03 (1) 1.20E+04 (4) 2.41E+03 (6) 4.56E+03 (2) 2.34E+02 (3) 5.10E+16 (3)
PGT 1.05E+03 (4) 1.53E+04 (3) 4.63E+03 (1) 1.73E+02 (4) 1.21E+02 (4) 1.56E+15 (4)
Z1H 9.29E+02 (5) 1.72E+04 (1) 3.93E+03 (2) 3.75E+01 (5) 3.17E+01 (5) 7.46E+13 (5)
Hs-Ce       
BBH 2.25E+03 (5) 3.62E+03 (6) 1.16E+02 (6) 0.00E+00 (6) 5.29E+01 (1) 5.00E+10 (6)
INP 3.02E+03 (3) 5.67E+03 (3) 2.17E+02 (4) 2.79E+02 (1) 7.62E+00 (4) 7.90E+12 (1)
KOG 4.20E+03 (1) 9.51E+03 (1) 6.14E+02 (1) 2.64E+01 (5) 1.17E+00 (6) 7.58E+11 (5)
MCL 2.50E+03 (4) 5.01E+03 (4) 1.76E+02 (5) 2.95E+01 (4) 2.94E+01 (2) 1.91E+12 (2)
PGT 3.89E+03 (2) 9.26E+03 (2) 3.84E+02 (2) 5.36E+01 (2) 1.65E+00 (5) 1.22E+12 (4)
Z1H 2.00E+03 (6) 4.74E+03 (5) 2.97E+02 (3) 4.20E+01 (3) 1.07E+01 (3) 1.27E+12 (3)
  1. Ce, Caenorhabditis elegans; Hs, Homo sapiens; Mm, Mus musculus.