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Table 2 Predicted protein-protein interaction pairs using different set 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

105

3,890

1,233

All

122

9,539

1,539

All (Inverse homology)

129

6,469

1,557

High GC Gram positive

27

4,237

1,058

Low GC Gram positive

33

34,968

1,325

Motile

88

24,198

1,972

Proteobacteria

101

48,730

2,119

Selected

109

3,839

1,206

  1. Pearson correlation coefficient with confidence 0.8 and E-value of 10-15 were used on binary profile vectors unless noted.
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BMC Genomics

ISSN: 1471-2164

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