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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.
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BMC Genomics

ISSN: 1471-2164

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