Figure 3
From: A high-accuracy consensus map of yeast protein complexes reveals modular nature of gene essentiality
Effect of thresholds on network size and derived complex accuracy. (A) Interactions in the PICO network were rank ordered, and the E-value was calculated as the sum of P-values. The number of interactions at each E-value threshold was counted; the total decreases as an increasingly stringent threshold is applied. (B) At each E-value threshold, the subset of interactions was clustered with MCL with parameters that optimized correlation with the filtered set of GO component annotations [see Methods]. The correlation with GO component (filled circles) and MIPS complexes (hollow circles) generally improves with the stringency of the E-value cutoff. We judged that the 10-2 cutoff provides a reasonable tradeoff between increasing accuracy and decreasing coverage, and chose this subset for further study.