Deep Sequencing of Protease Inhibitor Resistant HIV Patient Isolates Reveals Patterns of Correlated Mutations in Gag and Protease
Fig 5
Recovery of correlated protease-protease pairs.
Shown is a plot of the precision (also known as positive predictive value (PPV)) for the top 40% of correlated PR-PR pairs ranked by mutual information. In total, 1275 pairs are plotted (127 putative true positives) that are common to both our deep sequencing dataset and the Stanford HIVDB downloadable protease dataset (see Materials and Methods). True positives were determined through a mutual information calculation similar to the calculations in [3]. The precision plot shows, given a value of MI0, the number of true positives with MI>MI0 identified with deep sequencing divided by the number of true and false positives with MI>MI0 versus the percentage of all pairs with MI>MI0. The dashed horizontal line indicates the PPV of randomly drawn pairs. The insert shows the PPV for the top 5% of PR-PR correlated pairs ranked by MI.