New genetic interaction mapping of DNA repair and the nuclear lumen

This network contains the genetic interactions in Supplemental Table S3 of Yu et al. Cell Systems, 2016. The genetic interactions were experimentally measured as follows (copied from Yu et al. 2016).
"Double gene deletion mutants were generated on solid agar media using SGA technology as previously described (Collins et al., 2010; Tong and Boone, 2006). Briefly, double mutants were allowed to grow for 48 hours at 30°C and imaged using a Canon CCD camera. Colony sizes were quantified using the HT Colony Grid Analyzer (v. 1.1.7), after which genetic interaction scores (S-scores, Supplemental Table S3) were computed using the E-MAP toolbox (v.2.0) (Collins et al., 2006). 55 genes in DNA repair and 81 genes in the nuclear lumen, of which 29 genes are in both terms, were knocked out among the 2,503 measured double mutants. For 315 double mutants, both genes were annotated to both terms. Negative interactions were called with an S-score threshold of –3.70 for gene pairs in DNA repair or –2.47 for gene pairs in the nuclear lumen. These thresholds were determined such that, for gene pairs tested both by these new screens and previously by Costanzo et al., the fraction of negative interactions based on the S-scores was the same as the fraction based on previous measurements (9.0% for DNA repair and 7.5% for the nuclear lumen)."