Figure 2

Evaluation of metrics A. Gene network precision. The precision of the top-scoring gene pairs is shown for each evaluated metric (see Methods). A. Gene pair precision (y-axis) is plotted against the number of top-scoring gene pairs for the given metric (x-axis). Metrics discussed in the text are displayed as bold lines. The dashed line indicates the background precision of all gene pairs in the dataset. B. Gene neighborhood functional coherence. The 25 most similar genes to each query gene were identified using each evaluated metric. The precision of these 25 gene pairs was calculated using the evaluation set. Shown is the number of query genes with high precisions (> 0.25) for information-based (black bars) and non information-based metrics (gray bars).