Fig. 2: Comparison pluripotency and cell fitness screens reveal distinct hits.

a Schematic E8 and E6 fitness screens. b E8 and E6 Screen results by fitness score per gene = log10(RRA score Day 10 enrichment) − log10(RRA score Day 0 enrichment), top 150 pro-fitness (ranked by RRA score Day 0 enrichment) and top 150 anti-fitness (ranked by RRA score Day 10 enrichment) hits from each screen labeled. c E8 and E6 screen fitness hits in NE and DE screens. d NE and DE Screen results by pluripotency score per gene = log10(RRA score OCT4-GFP^hi enrichment) − log10(RRA score OCT4-GFP^lo enrichment), top 150 pro-pluripotency (ranked by RRA score OCT4-GFP^lo enrichment) and top 150 anti-pluripotency (ranked by RRA score OCT4-GFP^hi enrichment). e NE and DE screen pluripotency hits in E8 and E6 screens. f Upset plot⁹⁵ of overlap NE, DE pro-pluripotency hits and E8, E6 pro-fitness, and Upset plot overlap NE, DE anti-pluripotency and E8, E6 anti-fitness hits. g GSEA for enrichment of pro-pluripotency and pro-fitness gene sets from NE, DE, E8, E6 screens, previous screens by Yilmaz et al.¹¹, Mair et al.¹², and Ihry et al.¹³, as re-analyzed by Mair et al., and previous pluripotency screen as published in Ihry et al.¹³. Gene sets from previous fitness screens are top 150 genes per screen as ranked by Bayes factor score, calculated by BAGEL analysis⁹⁷. Gene sets from previous pluripotency screen are top 150 genes per screen as ranked by RSA score⁹⁸. Pluripotency screens labeled in red text, fitness screens labeled in orange text. h STRING³⁸ database analysis pro-pluripotency and pro-fitness hits from NE, DE, E8, and E6 screens, strength = log10(observed/expected) for enrichment of gene types within a set. i Proportion of common essentiality genes as defined by DepMap data sets^52,54,88 identified as top pro-pluripotency or pro-fitness hits in NE, DE, E8, and E6 screens.