Effectiveness of partial correlation coefficients on contact prediction accuracy.

The threshold to remove OTUs with short branches and the number of remaining OTUs that are used for each protein here are listed in Table 2.
The numbers of contacts and of sites, and their ratio are listed. Protein structures used to calculate contact residue pairs are listed in Table 1. Neighboring residue pairs within 5 residues () along a peptide chain are excluded in the evaluation of prediction accuracy. Also both terminal sites are excluded from counting in this table.
TP and FP are the numbers of true and false positives, and their sum is equal to the number of predicted contacts; only predictions for and are listed.
Correlation coefficients of co-substitution are used as a score.
Partial correlation coefficients of co-substitution are used as a score.
In Eq. 26 for an overall coevolution score, with is supposed instead of Eq. 25; in other words, correlation coefficients are used instead of partial correlation coefficients for characteristic changes except co-substitution.
‡The overall coevolution score defined by Eq. 26 is used.