Fig. 3

Screen quality biases impair dependency correlation analyses. a Correlation between pairs of gene dependency profiles, estimated using D1 applied to the Achilles data, increased systematically for gene pairs that were more essential on average. Red line shows the smoothed average. Color shows the density of data points in each region (log color scale). b Same as a but using D2, showing that the systematic upward bias in the pairwise correlation between pairs of common essential genes is removed. c Gene dependency correlation network surrounding MED14, constructed using D1 dependency estimates applied to the DRIVE dataset. Each node represents a gene, with edges depicting strong pairwise correlations (see Methods). Red nodes indicate genes that form protein complexes with MED14. Node size indicates the across-cell-line average dependency score for each gene (larger nodes representing more common-essential genes). d Same as c using D2, showing that the local dependency correlation network for MED14 is more enriched for co-complex members