Skip to main content

Table 1 Predicted protein-protein interaction pairs using different sets of reference genomes.

From: Investigation of factors affecting prediction of protein-protein interaction networks by phylogenetic profiling

Reference genome No. clusters >2 No. Co-Conserved predicted pairs No. Co-Conserved proteins
Aerobic 112 3,825 1,410
All 143 6,987 1,700
All (Inverse homology) 146 6,694 1,770
High GC Gram positive 33 7,932 1,389
Low GC Gram negative 43 56,659 1,667
Motile 110 16,905 1,990
Proteobacteria 111 24,047 2,072
Selected 133 7,408 1,361
  1. Pearson correlation coefficient with confidence 0.8 and E-value of 10-5 were used on binary profile vectors unless noted.