FIGURE 2. Quantitative comparison of interaction data sets.

The various data sets are benchmarked against a reference set of 10,907 trusted interactions, which are derived from protein complexes annotated manually at MIPS¹⁷ and YPD²⁴. Coverage and accuracy are lower limits owing to incompleteness of the reference set. Each dot in the graph represents an entire interaction data set, and its position specifies coverage and accuracy (on a log–log scale). For the combined evidence, we considered only interactions supported by an agreement of two (or three) of any of the methods shown. For most data sets, raw and filtered data are shown, demonstrating the trade-off between coverage and accuracy achieved by filtering (see Supplementary Information for details on the filtering).