Figure 4. Phylogenetic Method Identifies a Higher Percentage of Functional Links than the Across-Species Correlation.

The main graph shows the percentage of the predicted links at or below a given p-value, that correspond to annotated functionally linked pairs in the MIPS database, separately for the two methods. At a p-value of 1.0 or less, both methods declare all of the pairs to be functionally linked, producing a correct percentage of 54% (see Results). Inset: the percentage by which the phylogenetic method improves upon the across-species correlation, where improvement = (percent correct phylogenetic − percent correct across-species)/54.